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Versions

-class flair.datasets.biomedical.NCBI_DISEASE(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.NCBI_DISEASE(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Original NCBI disease corpus containing disease annotations.

For further information see @@ -1988,24 +1988,24 @@

Versions

-static patch_training_file(orig_train_file, patched_file)View on GitHub#
+static patch_training_file(orig_train_file, patched_file)View on GitHub#
-static parse_input_file(input_file)View on GitHub#
+static parse_input_file(input_file)View on GitHub#
-class flair.datasets.biomedical.HUNER_DISEASE_NCBI(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_DISEASE_NCBI(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the NCBI corpus containing disease annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2015,7 +2015,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2027,12 +2027,12 @@

Versions

-class flair.datasets.biomedical.ScaiCorpus(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.ScaiCorpus(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Base class to support the SCAI chemicals and disease corpora.

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the SCAU corpus.

Parameters:
@@ -2048,7 +2048,7 @@

Versions

-download_corpus(data_folder)View on GitHub#
+download_corpus(data_folder)View on GitHub#
Return type:

Path

@@ -2058,14 +2058,14 @@

Versions

-static parse_input_file(input_file)View on GitHub#
+static parse_input_file(input_file)View on GitHub#
-class flair.datasets.biomedical.SCAI_CHEMICALS(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.SCAI_CHEMICALS(*args, **kwargs)View on GitHub#

Bases: ScaiCorpus

Original SCAI chemicals corpus containing chemical annotations.

For further information see Kolářik et al.: Chemical Names: @@ -2077,7 +2077,7 @@

Versions

-download_corpus(data_dir)View on GitHub#
+download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2087,7 +2087,7 @@

Versions

-static perform_corpus_download(data_dir)View on GitHub#
+static perform_corpus_download(data_dir)View on GitHub#
Return type:

Path

@@ -2099,7 +2099,7 @@

Versions

-class flair.datasets.biomedical.SCAI_DISEASE(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.SCAI_DISEASE(*args, **kwargs)View on GitHub#

Bases: ScaiCorpus

Original SCAI disease corpus containing disease annotations.

For further information see Gurulingappa et al.: An Empirical @@ -2112,7 +2112,7 @@

Versions

-download_corpus(data_dir)View on GitHub#
+download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2122,7 +2122,7 @@

Versions

-static perform_corpus_download(data_dir)View on GitHub#
+static perform_corpus_download(data_dir)View on GitHub#
Return type:

Path

@@ -2134,12 +2134,12 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_SCAI(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_SCAI(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the SCAI chemicals corpus containing chemical annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2149,7 +2149,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2161,12 +2161,12 @@

Versions

-class flair.datasets.biomedical.HUNER_DISEASE_SCAI(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_DISEASE_SCAI(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the SCAI chemicals corpus containing chemical annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2176,7 +2176,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2188,7 +2188,7 @@

Versions

-class flair.datasets.biomedical.OSIRIS(base_path=None, in_memory=True, sentence_splitter=None, load_original_unfixed_annotation=False)View on GitHub#
+class flair.datasets.biomedical.OSIRIS(base_path=None, in_memory=True, sentence_splitter=None, load_original_unfixed_annotation=False)View on GitHub#

Bases: ColumnCorpus

Original OSIRIS corpus containing variation and gene annotations.

For further information see Furlong et al.: Osiris v1.2: a named @@ -2201,7 +2201,7 @@

Versions

-__init__(base_path=None, in_memory=True, sentence_splitter=None, load_original_unfixed_annotation=False)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None, load_original_unfixed_annotation=False)View on GitHub#

Initialize the OSIRIS corpus.

Parameters:
@@ -2220,7 +2220,7 @@

Versions

-classmethod download_dataset(data_dir)View on GitHub#
+classmethod download_dataset(data_dir)View on GitHub#
Return type:

Path

@@ -2230,19 +2230,19 @@

Versions

-classmethod parse_dataset(corpus_folder, fix_annotation=True)View on GitHub#
+classmethod parse_dataset(corpus_folder, fix_annotation=True)View on GitHub#
-class flair.datasets.biomedical.HUNER_GENE_OSIRIS(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_OSIRIS(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the OSIRIS corpus containing (only) gene annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2252,7 +2252,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2264,7 +2264,7 @@

Versions

-class flair.datasets.biomedical.S800(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.S800(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

S800 corpus.

For further information see @@ -2272,7 +2272,7 @@

Versions

http://www.plosone.org/article/info:doi%2F10.1371%2Fjournal.pone.0065390.

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the S800 corpus.

Parameters:
@@ -2288,12 +2288,12 @@

Versions

-static download_dataset(data_dir)View on GitHub#
+static download_dataset(data_dir)View on GitHub#
-static parse_dataset(data_dir)View on GitHub#
+static parse_dataset(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2305,12 +2305,12 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_S800(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_S800(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the S800 corpus containing species annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2320,7 +2320,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2332,14 +2332,14 @@

Versions

-class flair.datasets.biomedical.GPRO(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.GPRO(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Original GPRO corpus containing gene annotations.

For further information see: https://biocreative.bioinformatics.udel.edu/tasks/biocreative-v/gpro-detailed-task-description/

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the GPRO corpus.

Parameters:
@@ -2355,7 +2355,7 @@

Versions

-classmethod download_train_corpus(data_dir)View on GitHub#
+classmethod download_train_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2365,7 +2365,7 @@

Versions

-classmethod download_dev_corpus(data_dir)View on GitHub#
+classmethod download_dev_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2375,7 +2375,7 @@

Versions

-static parse_input_file(text_file, ann_file)View on GitHub#
+static parse_input_file(text_file, ann_file)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2387,12 +2387,12 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_GPRO(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_GPRO(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the GPRO corpus containing gene annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2402,7 +2402,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2414,7 +2414,7 @@

Versions

-class flair.datasets.biomedical.DECA(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.DECA(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Original DECA corpus containing gene annotations.

For further information see Wang et al.: Disambiguating the @@ -2422,7 +2422,7 @@

Versions

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2828111/

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the DECA corpus.

Parameters:
@@ -2438,7 +2438,7 @@

Versions

-classmethod download_corpus(data_dir)View on GitHub#
+classmethod download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2448,7 +2448,7 @@

Versions

-static parse_corpus(text_dir, gold_file)View on GitHub#
+static parse_corpus(text_dir, gold_file)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2460,12 +2460,12 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_DECA(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_DECA(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the DECA corpus containing gene annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2475,7 +2475,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2487,7 +2487,7 @@

Versions

-class flair.datasets.biomedical.FSU(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.FSU(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

Original FSU corpus containing protein and derived annotations.

For further information see @@ -2495,7 +2495,7 @@

Versions

https://www.aclweb.org/anthology/W10-1838/

-__init__(base_path=None, in_memory=True)View on GitHub#
+__init__(base_path=None, in_memory=True)View on GitHub#

Initialize the FSU corpus.

Parameters:
@@ -2509,7 +2509,7 @@

Versions

-classmethod download_corpus(data_dir)View on GitHub#
+classmethod download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2519,7 +2519,7 @@

Versions

-static parse_corpus(corpus_dir, sentence_separator)View on GitHub#
+static parse_corpus(corpus_dir, sentence_separator)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2531,12 +2531,12 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_FSU(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_FSU(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the FSU corpus containing (only) gene annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2546,7 +2546,7 @@

Versions

-get_corpus_sentence_splitter()View on GitHub#
+get_corpus_sentence_splitter()View on GitHub#

Return the pre-defined sentence splitter if defined, otherwise return None.

Return type:
@@ -2557,7 +2557,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2569,7 +2569,7 @@

Versions

-class flair.datasets.biomedical.CRAFT(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.CRAFT(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Original CRAFT corpus (version 2.0) containing all but the coreference and sections/typography annotations.

For further information see Bada et al.: Concept annotation in the @@ -2577,7 +2577,7 @@

Versions

https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-13-161

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the CRAFT corpus.

Parameters:
@@ -2593,7 +2593,7 @@

Versions

-classmethod download_corpus(data_dir)View on GitHub#
+classmethod download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2603,7 +2603,7 @@

Versions

-static parse_corpus(corpus_dir)View on GitHub#
+static parse_corpus(corpus_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2615,7 +2615,7 @@

Versions

-class flair.datasets.biomedical.BIOSEMANTICS(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.BIOSEMANTICS(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Original Biosemantics corpus.

For further information see Akhondi et al.: Annotated chemical @@ -2623,7 +2623,7 @@

Versions

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4182036/

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the Biosemantics corpus.

Parameters:
@@ -2639,7 +2639,7 @@

Versions

-static download_dataset(data_dir)View on GitHub#
+static download_dataset(data_dir)View on GitHub#
Return type:

Path

@@ -2649,7 +2649,7 @@

Versions

-static parse_dataset(data_dir)View on GitHub#
+static parse_dataset(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2661,7 +2661,7 @@

Versions

-class flair.datasets.biomedical.BC2GM(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.BC2GM(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Original BioCreative-II-GM corpus containing gene annotations.

For further information see Smith et al.: Overview of @@ -2673,7 +2673,7 @@

Versions

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the BioCreative-II-GM corpus.

Parameters:
@@ -2689,7 +2689,7 @@

Versions

-static download_dataset(data_dir)View on GitHub#
+static download_dataset(data_dir)View on GitHub#
Return type:

Path

@@ -2699,7 +2699,7 @@

Versions

-classmethod parse_train_dataset(data_folder)View on GitHub#
+classmethod parse_train_dataset(data_folder)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2709,7 +2709,7 @@

Versions

-classmethod parse_test_dataset(data_folder)View on GitHub#
+classmethod parse_test_dataset(data_folder)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2719,7 +2719,7 @@

Versions

-static parse_dataset(text_file, ann_file)View on GitHub#
+static parse_dataset(text_file, ann_file)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2731,12 +2731,12 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BC2GM(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BC2GM(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the BioCreative-II-GM corpus containing gene annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2746,7 +2746,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2758,14 +2758,14 @@

Versions

-class flair.datasets.biomedical.CEMP(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.CEMP(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Original CEMP corpus containing chemical annotations.

For further information see: https://biocreative.bioinformatics.udel.edu/tasks/biocreative-v/cemp-detailed-task-description/

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the CEMP corpus.

Parameters:
@@ -2781,7 +2781,7 @@

Versions

-classmethod download_train_corpus(data_dir)View on GitHub#
+classmethod download_train_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2791,7 +2791,7 @@

Versions

-classmethod download_dev_corpus(data_dir)View on GitHub#
+classmethod download_dev_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -2801,7 +2801,7 @@

Versions

-static parse_input_file(text_file, ann_file)View on GitHub#
+static parse_input_file(text_file, ann_file)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2813,12 +2813,12 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_CEMP(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_CEMP(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the CEMP corpus containing chemical annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2828,7 +2828,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2840,7 +2840,7 @@

Versions

-class flair.datasets.biomedical.CHEBI(base_path=None, in_memory=True, sentence_splitter=None, annotator=0)View on GitHub#
+class flair.datasets.biomedical.CHEBI(base_path=None, in_memory=True, sentence_splitter=None, annotator=0)View on GitHub#

Bases: ColumnCorpus

Original CHEBI corpus containing all annotations.

For further information see Shardlow et al.: A New Corpus to @@ -2853,7 +2853,7 @@

Versions

-__init__(base_path=None, in_memory=True, sentence_splitter=None, annotator=0)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None, annotator=0)View on GitHub#

Initialize the CHEBI corpus.

Parameters:
@@ -2871,7 +2871,7 @@

Versions

-static download_dataset(data_dir)View on GitHub#
+static download_dataset(data_dir)View on GitHub#
Return type:

Path

@@ -2881,7 +2881,7 @@

Versions

-static parse_dataset(data_dir, annotator)View on GitHub#
+static parse_dataset(data_dir, annotator)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2891,19 +2891,19 @@

Versions

-static get_entities(f)View on GitHub#
+static get_entities(f)View on GitHub#
-class flair.datasets.biomedical.HUNER_CHEMICAL_CHEBI(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_CHEBI(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the CHEBI corpus containing chemical annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2913,7 +2913,7 @@

Versions

-to_internal(data_dir, annotator=0)View on GitHub#
+to_internal(data_dir, annotator=0)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2925,12 +2925,12 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_CHEBI(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_CHEBI(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the CHEBI corpus containing gene annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2940,7 +2940,7 @@

Versions

-to_internal(data_dir, annotator=0)View on GitHub#
+to_internal(data_dir, annotator=0)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2952,12 +2952,12 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_CHEBI(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_CHEBI(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the CHEBI corpus containing species annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -2967,7 +2967,7 @@

Versions

-to_internal(data_dir, annotator=0)View on GitHub#
+to_internal(data_dir, annotator=0)View on GitHub#
Return type:

InternalBioNerDataset

@@ -2979,14 +2979,14 @@

Versions

-class flair.datasets.biomedical.BioNLPCorpus(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.BioNLPCorpus(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Base class for corpora from BioNLP event extraction shared tasks.

For further information see: http://2013.bionlp-st.org/Intro

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the BioNLP Corpus.

Parameters:
@@ -3002,7 +3002,7 @@

Versions

-abstract static download_corpus(data_folder)View on GitHub#
+abstract static download_corpus(data_folder)View on GitHub#
Return type:

Tuple[Path, Path, Path]

@@ -3012,7 +3012,7 @@

Versions

-static parse_input_files(input_folder)View on GitHub#
+static parse_input_files(input_folder)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3024,7 +3024,7 @@

Versions

-class flair.datasets.biomedical.BIONLP2013_PC(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.BIONLP2013_PC(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: BioNLPCorpus

Corpus of the BioNLP’2013 Pathway Curation shared task.

For further information see Ohta et al. Overview of the pathway @@ -3036,7 +3036,7 @@

Versions

-static download_corpus(download_folder)View on GitHub#
+static download_corpus(download_folder)View on GitHub#
Return type:

Tuple[Path, Path, Path]

@@ -3048,7 +3048,7 @@

Versions

-class flair.datasets.biomedical.BIONLP2013_CG(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.BIONLP2013_CG(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: BioNLPCorpus

Corpus of the BioNLP’2013 Cancer Genetics shared task.

For further information see Pyysalo, Ohta & Ananiadou 2013 @@ -3060,7 +3060,7 @@

Versions

-static download_corpus(download_folder)View on GitHub#
+static download_corpus(download_folder)View on GitHub#
Return type:

Tuple[Path, Path, Path]

@@ -3072,7 +3072,7 @@

Versions

-class flair.datasets.biomedical.ANAT_EM(base_path=None, in_memory=True, tokenizer=None)View on GitHub#
+class flair.datasets.biomedical.ANAT_EM(base_path=None, in_memory=True, tokenizer=None)View on GitHub#

Bases: ColumnCorpus

Corpus for anatomical named entity mention recognition.

For further information see Pyysalo and Ananiadou: Anatomical @@ -3085,7 +3085,7 @@

Versions

-__init__(base_path=None, in_memory=True, tokenizer=None)View on GitHub#
+__init__(base_path=None, in_memory=True, tokenizer=None)View on GitHub#

Initialize the anatomical named entity mention recognition Corpus.

Parameters:
@@ -3101,12 +3101,12 @@

Versions

-abstract static download_corpus(data_folder)View on GitHub#
+abstract static download_corpus(data_folder)View on GitHub#
-static parse_input_files(input_dir, sentence_separator)View on GitHub#
+static parse_input_files(input_dir, sentence_separator)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3118,7 +3118,7 @@

Versions

-class flair.datasets.biomedical.BioBertHelper(data_folder, column_format, train_file=None, test_file=None, dev_file=None, autofind_splits=True, name=None, comment_symbol='# ', **corpusargs)View on GitHub#
+class flair.datasets.biomedical.BioBertHelper(data_folder, column_format, train_file=None, test_file=None, dev_file=None, autofind_splits=True, name=None, comment_symbol='# ', **corpusargs)View on GitHub#

Bases: ColumnCorpus

Helper class to convert corpora and the respective train, dev and test split used by BioBERT.

For further details see Lee et al.: @@ -3126,19 +3126,19 @@

Versions

dmis-lab/biobert

-static download_corpora(download_dir)View on GitHub#
+static download_corpora(download_dir)View on GitHub#
-static convert_and_write(download_folder, data_folder, tag_type)View on GitHub#
+static convert_and_write(download_folder, data_folder, tag_type)View on GitHub#
-class flair.datasets.biomedical.BIOBERT_CHEMICAL_BC4CHEMD(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_CHEMICAL_BC4CHEMD(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

BC4CHEMD corpus with chemical annotations as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3149,7 +3149,7 @@

Versions

-class flair.datasets.biomedical.BIOBERT_GENE_BC2GM(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_GENE_BC2GM(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

BC4CHEMD corpus with gene annotations as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3160,7 +3160,7 @@

Versions

-class flair.datasets.biomedical.BIOBERT_GENE_JNLPBA(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_GENE_JNLPBA(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

JNLPBA corpus with gene annotations as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3171,7 +3171,7 @@

Versions

-class flair.datasets.biomedical.BIOBERT_CHEMICAL_BC5CDR(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_CHEMICAL_BC5CDR(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

BC5CDR corpus with chemical annotations as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3182,7 +3182,7 @@

Versions

-class flair.datasets.biomedical.BIOBERT_DISEASE_BC5CDR(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_DISEASE_BC5CDR(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

BC5CDR corpus with disease annotations as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3193,7 +3193,7 @@

Versions

-class flair.datasets.biomedical.BIOBERT_DISEASE_NCBI(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_DISEASE_NCBI(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

NCBI disease corpus as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3204,7 +3204,7 @@

Versions

-class flair.datasets.biomedical.BIOBERT_SPECIES_LINNAEUS(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_SPECIES_LINNAEUS(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

Linneaeus corpus with species annotations as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3215,7 +3215,7 @@

Versions

-class flair.datasets.biomedical.BIOBERT_SPECIES_S800(base_path=None, in_memory=True)View on GitHub#
+class flair.datasets.biomedical.BIOBERT_SPECIES_S800(base_path=None, in_memory=True)View on GitHub#

Bases: ColumnCorpus

S800 corpus with species annotations as used in the evaluation of BioBERT.

For further details regarding BioBERT and it’s evaluation, see Lee @@ -3226,14 +3226,14 @@

Versions

-class flair.datasets.biomedical.CRAFT_V4(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.CRAFT_V4(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Version 4.0.1 of the CRAFT corpus containing all but the co-reference and structural annotations.

For further information see: UCDenver-ccp/CRAFT

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initializes version 4.0.1 of the CRAFT corpus.

Parameters:
@@ -3249,7 +3249,7 @@

Versions

-filter_entities(corpus)View on GitHub#
+filter_entities(corpus)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3259,7 +3259,7 @@

Versions

-classmethod download_corpus(data_dir)View on GitHub#
+classmethod download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -3269,7 +3269,7 @@

Versions

-static prepare_splits(data_dir, corpus)View on GitHub#
+static prepare_splits(data_dir, corpus)View on GitHub#
Return type:

Tuple[InternalBioNerDataset, InternalBioNerDataset, InternalBioNerDataset]

@@ -3279,7 +3279,7 @@

Versions

-static parse_corpus(corpus_dir)View on GitHub#
+static parse_corpus(corpus_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3291,12 +3291,12 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_CRAFT_V4(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_CRAFT_V4(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the CRAFT corpus containing (only) chemical annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3306,7 +3306,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3318,12 +3318,12 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_CRAFT_V4(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_CRAFT_V4(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the CRAFT corpus containing (only) gene annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3333,7 +3333,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3345,12 +3345,12 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_CRAFT_V4(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_CRAFT_V4(*args, **kwargs)View on GitHub#

Bases: HunerDataset

HUNER version of the CRAFT corpus containing (only) species annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3360,7 +3360,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3372,11 +3372,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_BIONLP2013_CG(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_BIONLP2013_CG(*args, **kwargs)View on GitHub#

Bases: HunerDataset

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3386,7 +3386,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3398,11 +3398,11 @@

Versions

-class flair.datasets.biomedical.HUNER_DISEASE_BIONLP2013_CG(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_DISEASE_BIONLP2013_CG(*args, **kwargs)View on GitHub#

Bases: HunerDataset

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3412,7 +3412,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3424,11 +3424,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIONLP2013_CG(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIONLP2013_CG(*args, **kwargs)View on GitHub#

Bases: HunerDataset

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3438,7 +3438,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3450,11 +3450,11 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_BIONLP2013_CG(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_BIONLP2013_CG(*args, **kwargs)View on GitHub#

Bases: HunerDataset

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3464,7 +3464,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3476,14 +3476,14 @@

Versions

-class flair.datasets.biomedical.AZDZ(base_path=None, in_memory=True, tokenizer=None)View on GitHub#
+class flair.datasets.biomedical.AZDZ(base_path=None, in_memory=True, tokenizer=None)View on GitHub#

Bases: ColumnCorpus

Arizona Disease Corpus from the Biomedical Informatics Lab at Arizona State University.

For further information see: http://diego.asu.edu/index.php

-__init__(base_path=None, in_memory=True, tokenizer=None)View on GitHub#
+__init__(base_path=None, in_memory=True, tokenizer=None)View on GitHub#

Initializes the Arizona Disease Corpus.

Parameters:
@@ -3499,7 +3499,7 @@

Versions

-classmethod download_corpus(data_dir)View on GitHub#
+classmethod download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -3509,7 +3509,7 @@

Versions

-static parse_corpus(input_file)View on GitHub#
+static parse_corpus(input_file)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3521,7 +3521,7 @@

Versions

-class flair.datasets.biomedical.PDR(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.PDR(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Bases: ColumnCorpus

Corpus of plant-disease relations.

For further information see Kim et al.: A corpus of plant-disease @@ -3534,7 +3534,7 @@

Versions

-__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#
+__init__(base_path=None, in_memory=True, sentence_splitter=None)View on GitHub#

Initialize the plant-disease relations Corpus.

Parameters:
@@ -3550,7 +3550,7 @@

Versions

-classmethod download_corpus(data_dir)View on GitHub#
+classmethod download_corpus(data_dir)View on GitHub#
Return type:

Path

@@ -3562,12 +3562,12 @@

Versions

-class flair.datasets.biomedical.HUNER_DISEASE_PDR(*args, **kwargs)View on GitHub#
+class flair.datasets.biomedical.HUNER_DISEASE_PDR(*args, **kwargs)View on GitHub#

Bases: HunerDataset

PDR Dataset with only Disease annotations.

-static split_url()View on GitHub#
+static split_url()View on GitHub#
Return type:

str

@@ -3577,7 +3577,7 @@

Versions

-to_internal(data_dir)View on GitHub#
+to_internal(data_dir)View on GitHub#
Return type:

InternalBioNerDataset

@@ -3589,49 +3589,49 @@

Versions

-class flair.datasets.biomedical.HunerMultiCorpus(entity_type, sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.HunerMultiCorpus(entity_type, sentence_splitter=None)View on GitHub#

Bases: MultiCorpus

Base class to build the union of all HUNER data sets considering a particular entity type.

-class flair.datasets.biomedical.HUNER_CELL_LINE(sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CELL_LINE(sentence_splitter=None)View on GitHub#

Bases: HunerMultiCorpus

Union of all HUNER cell line data sets.

-class flair.datasets.biomedical.HUNER_CHEMICAL(sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL(sentence_splitter=None)View on GitHub#

Bases: HunerMultiCorpus

Union of all HUNER chemical data sets.

-class flair.datasets.biomedical.HUNER_DISEASE(sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_DISEASE(sentence_splitter=None)View on GitHub#

Bases: HunerMultiCorpus

Union of all HUNER disease data sets.

-class flair.datasets.biomedical.HUNER_GENE(sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE(sentence_splitter=None)View on GitHub#

Bases: HunerMultiCorpus

Union of all HUNER gene data sets.

-class flair.datasets.biomedical.HUNER_SPECIES(sentence_splitter=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES(sentence_splitter=None)View on GitHub#

Bases: HunerMultiCorpus

Union of all HUNER species data sets.

-class flair.datasets.biomedical.BIGBIO_NER_CORPUS(dataset_name, base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.BIGBIO_NER_CORPUS(dataset_name, base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: ColumnCorpus

This class implements an adapter to data sets implemented in the BigBio framework.

see bigscience-workshop/biomedical

@@ -3640,7 +3640,7 @@

Versions

data sets by using the bigbio_kb schema.

-__init__(dataset_name, base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+__init__(dataset_name, base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Initialize the BigBio Corpus.

Parameters:
@@ -3660,7 +3660,7 @@

Versions

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3672,7 +3672,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3683,7 +3683,7 @@

Versions

-to_internal_dataset(dataset, split)View on GitHub#
+to_internal_dataset(dataset, split)View on GitHub#

Converts a dataset given in hugging datasets format to our internal corpus representation.

Return type:
@@ -3694,7 +3694,7 @@

Versions

-bin_search_passage(passages, low, high, entity)View on GitHub#
+bin_search_passage(passages, low, high, entity)View on GitHub#

Helper methods to find the passage to a given entity mention inclusive offset.

The implementation uses binary search to find the passage in the ordered sequence passages.

@@ -3703,11 +3703,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_NLM_GENE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_NLM_GENE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3719,7 +3719,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3732,11 +3732,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_DRUGPROT(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_DRUGPROT(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3748,7 +3748,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3761,11 +3761,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_DRUGPROT(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_DRUGPROT(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3777,7 +3777,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3790,11 +3790,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3806,7 +3806,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3819,11 +3819,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3835,7 +3835,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3848,11 +3848,11 @@

Versions

-class flair.datasets.biomedical.HUNER_DISEASE_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_DISEASE_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3864,7 +3864,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3877,11 +3877,11 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3893,7 +3893,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3906,11 +3906,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CELL_LINE_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CELL_LINE_BIORED(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3922,7 +3922,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3935,11 +3935,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_CPI(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_CPI(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3951,7 +3951,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3964,11 +3964,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_CPI(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_CPI(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -3980,7 +3980,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -3993,11 +3993,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2013_PC(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2013_PC(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4009,7 +4009,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4022,11 +4022,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_BIONLP_ST_2013_PC(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_BIONLP_ST_2013_PC(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4038,7 +4038,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4051,11 +4051,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2013_GE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2013_GE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4067,7 +4067,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4080,11 +4080,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_GE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_GE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4096,7 +4096,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4109,11 +4109,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_ID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_ID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4125,7 +4125,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4138,11 +4138,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_BIONLP_ST_2011_ID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_BIONLP_ST_2011_ID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4154,7 +4154,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4167,11 +4167,11 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_BIONLP_ST_2011_ID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_BIONLP_ST_2011_ID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4183,7 +4183,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4196,11 +4196,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_REL(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_REL(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4212,7 +4212,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4225,11 +4225,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_EPI(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIONLP_ST_2011_EPI(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4241,7 +4241,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4254,11 +4254,11 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_BIONLP_ST_2019_BB(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_BIONLP_ST_2019_BB(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4270,7 +4270,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4283,11 +4283,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4299,7 +4299,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4312,11 +4312,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4328,7 +4328,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4341,11 +4341,11 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4357,7 +4357,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4370,11 +4370,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CELL_LINE_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CELL_LINE_BIOID(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4386,7 +4386,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4399,11 +4399,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_GNORMPLUS(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_GNORMPLUS(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4415,7 +4415,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4428,11 +4428,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_PROGENE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_PROGENE(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4444,7 +4444,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4457,11 +4457,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CHEMICAL_NLM_CHEM(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CHEMICAL_NLM_CHEM(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4473,7 +4473,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4486,11 +4486,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_SETH_CORPUS(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_SETH_CORPUS(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4502,7 +4502,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4515,11 +4515,11 @@

Versions

-class flair.datasets.biomedical.HUNER_GENE_TMVAR_V3(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_GENE_TMVAR_V3(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4531,7 +4531,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4544,11 +4544,11 @@

Versions

-class flair.datasets.biomedical.HUNER_SPECIES_TMVAR_V3(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_SPECIES_TMVAR_V3(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4560,7 +4560,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
@@ -4573,11 +4573,11 @@

Versions

-class flair.datasets.biomedical.HUNER_CELL_LINE_TMVAR_V3(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#
+class flair.datasets.biomedical.HUNER_CELL_LINE_TMVAR_V3(base_path=None, in_memory=True, sentence_splitter=None, train_split_name=None, dev_split_name=None, test_split_name=None)View on GitHub#

Bases: BIGBIO_NER_CORPUS

-get_entity_type_mapping()View on GitHub#
+get_entity_type_mapping()View on GitHub#

Return the mapping of entity type given in the dataset to canonical types.

Note, if a entity type is not present in the map it is discarded.

@@ -4589,7 +4589,7 @@

Versions

-build_corpus_directory_name(dataset_name)View on GitHub#
+build_corpus_directory_name(dataset_name)View on GitHub#

Builds the directory name for the given data set.

Return type:
diff --git a/master/api/datasets/sequence_labeling.html b/master/api/datasets/sequence_labeling.html index 3e7ed4021..24828228f 100644 --- a/master/api/datasets/sequence_labeling.html +++ b/master/api/datasets/sequence_labeling.html @@ -1346,7 +1346,7 @@

Versions

-class flair.datasets.sequence_labeling.NER_GERMAN_POLITICS(base_path=None, column_delimiter='\\\\s+', in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_GERMAN_POLITICS(base_path=None, column_delimiter='\\\\s+', in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

@@ -1368,11 +1368,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_HUNGARIAN(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_HUNGARIAN(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the NER Business corpus for Hungarian.

The first time you call this constructor it will automatically download the dataset. :type base_path: Union[str, Path, None] @@ -1389,11 +1389,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_ICELANDIC(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_ICELANDIC(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the ICELANDIC_NER corpus.

The first time you call this constructor it will automatically download the dataset. :type base_path: Union[str, Path, None] @@ -1409,11 +1409,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_JAPANESE(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_JAPANESE(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the Hironsan/IOB2 corpus for Japanese.

The first time you call this constructor it will automatically download the dataset.

@@ -1430,11 +1430,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_MASAKHANE(languages='luo', version='v2', base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_MASAKHANE(languages='luo', version='v2', base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: MultiCorpus

-__init__(languages='luo', version='v2', base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(languages='luo', version='v2', base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the Masakhane corpus available on masakhane-io/masakhane-ner.

It consists of ten African languages. Pass a language code or a list of language codes to initialize the corpus with the languages you require. If you pass “all”, all languages will be initialized. @@ -1451,11 +1451,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_MULTI_CONER(task='multi', base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_MULTI_CONER(task='multi', base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: MultiFileColumnCorpus

-__init__(task='multi', base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(task='multi', base_path=None, in_memory=True, **corpusargs)View on GitHub#

Download and Initialize the MultiCoNer corpus.

Parameters:
@@ -1472,11 +1472,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_MULTI_CONER_V2(task='multi', base_path=None, in_memory=True, use_dev_as_test=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_MULTI_CONER_V2(task='multi', base_path=None, in_memory=True, use_dev_as_test=True, **corpusargs)View on GitHub#

Bases: MultiFileColumnCorpus

-__init__(task='multi', base_path=None, in_memory=True, use_dev_as_test=True, **corpusargs)View on GitHub#
+__init__(task='multi', base_path=None, in_memory=True, use_dev_as_test=True, **corpusargs)View on GitHub#

Initialize the MultiCoNer V2 corpus for the Semeval2023 workshop.

This is only possible if you’ve applied and downloaded it to your machine. Apply for the corpus from here https://multiconer.github.io/dataset and unpack the .zip file’s content into @@ -1498,11 +1498,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_MULTI_WIKIANN(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_MULTI_WIKIANN(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#

Bases: MultiCorpus

-__init__(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#
+__init__(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#

Initialize the WkiAnn corpus for cross-lingual NER consisting of datasets from 282 languages that exist in Wikipedia.

See https://elisa-ie.github.io/wikiann/ for details and for the languages and their respective abbreveations, i.e. “en” for english. (license: https://opendatacommons.org/licenses/by/)

@@ -1527,11 +1527,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_MULTI_XTREME(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_MULTI_XTREME(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#

Bases: MultiCorpus

-__init__(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#
+__init__(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#

Xtreme corpus for cross-lingual NER consisting of datasets of a total of 40 languages.

The data comes from the google research work XTREME google-research/xtreme. The data is derived from the wikiann dataset https://elisa-ie.github.io/wikiann/ (license: https://opendatacommons.org/licenses/by/)

@@ -1550,17 +1550,17 @@

Versions

-class flair.datasets.sequence_labeling.NER_MULTI_WIKINER(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_MULTI_WIKINER(languages='en', base_path=None, in_memory=False, **corpusargs)View on GitHub#

Bases: MultiCorpus

-class flair.datasets.sequence_labeling.NER_SWEDISH(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_SWEDISH(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the NER_SWEDISH corpus for Swedish.

The first time you call this constructor it will automatically download the dataset. :type base_path: Union[str, Path, None] @@ -1573,7 +1573,7 @@

Versions

-_add_IOB2_tags(data_file, encoding='utf8')View on GitHub#
+_add_IOB2_tags(data_file, encoding='utf8')View on GitHub#

Function that adds IOB2 tags if only chunk names are provided.

e.g. words are tagged PER instead of B-PER or I-PER. Replaces ‘0’ with ‘O’ as the no-chunk tag since ColumnCorpus expects the letter ‘O’. Additionally it removes lines with no tags in the data file and can also @@ -1592,11 +1592,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_TURKU(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_TURKU(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the Finnish TurkuNER corpus.

The first time you call this constructor it will automatically download the dataset. :type base_path: Union[str, Path, None] @@ -1612,11 +1612,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_UKRAINIAN(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_UKRAINIAN(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the Ukrainian NER corpus from lang-uk project.

The first time you call this constructor it will automatically download the dataset. :type base_path: Union[str, Path, None] @@ -1632,29 +1632,29 @@

Versions

-class flair.datasets.sequence_labeling.KEYPHRASE_SEMEVAL2017(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.KEYPHRASE_SEMEVAL2017(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-class flair.datasets.sequence_labeling.KEYPHRASE_INSPEC(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.KEYPHRASE_INSPEC(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-class flair.datasets.sequence_labeling.KEYPHRASE_SEMEVAL2010(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.KEYPHRASE_SEMEVAL2010(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-class flair.datasets.sequence_labeling.UP_CHINESE(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_CHINESE(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the Chinese dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1672,11 +1672,11 @@

Versions

-class flair.datasets.sequence_labeling.UP_ENGLISH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_ENGLISH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the English dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1694,11 +1694,11 @@

Versions

-class flair.datasets.sequence_labeling.UP_FRENCH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_FRENCH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the French dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1716,11 +1716,11 @@

Versions

-class flair.datasets.sequence_labeling.UP_FINNISH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_FINNISH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the Finnish dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1738,11 +1738,11 @@

Versions

-class flair.datasets.sequence_labeling.UP_GERMAN(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_GERMAN(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the German dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1760,11 +1760,11 @@

Versions

-class flair.datasets.sequence_labeling.UP_ITALIAN(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_ITALIAN(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the Italian dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1782,11 +1782,11 @@

Versions

-class flair.datasets.sequence_labeling.UP_SPANISH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_SPANISH(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the Spanish dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1804,11 +1804,11 @@

Versions

-class flair.datasets.sequence_labeling.UP_SPANISH_ANCORA(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.UP_SPANISH_ANCORA(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, document_as_sequence=False, **corpusargs)View on GitHub#

Initialize the Spanish AnCora dataset from the Universal Propositions Bank.

The dataset is downloaded from System-T/UniversalPropositions

@@ -1826,11 +1826,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_HIPE_2022(dataset_name, language, base_path=None, in_memory=True, version='v2.1', branch_name='main', dev_split_name='dev', add_document_separator=False, sample_missing_splits=False, preproc_fn=None, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_HIPE_2022(dataset_name, language, base_path=None, in_memory=True, version='v2.1', branch_name='main', dev_split_name='dev', add_document_separator=False, sample_missing_splits=False, preproc_fn=None, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(dataset_name, language, base_path=None, in_memory=True, version='v2.1', branch_name='main', dev_split_name='dev', add_document_separator=False, sample_missing_splits=False, preproc_fn=None, **corpusargs)View on GitHub#
+__init__(dataset_name, language, base_path=None, in_memory=True, version='v2.1', branch_name='main', dev_split_name='dev', add_document_separator=False, sample_missing_splits=False, preproc_fn=None, **corpusargs)View on GitHub#

Initialize the CLEF-HIPE 2022 NER dataset.

The first time you call this constructor it will automatically download the specified dataset (by given a language). @@ -1853,11 +1853,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_ICDAR_EUROPEANA(language, base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_ICDAR_EUROPEANA(language, base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(language, base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(language, base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the ICDAR Europeana NER dataset.

The dataset is based on the French and Dutch Europeana NER corpora from the Europeana Newspapers NER dataset (https://lab.kb.nl/dataset/europeana-newspapers-ner), with additional @@ -1877,11 +1877,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_NERMUD(domains='all', base_path=None, in_memory=False, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_NERMUD(domains='all', base_path=None, in_memory=False, **corpusargs)View on GitHub#

Bases: MultiCorpus

-__init__(domains='all', base_path=None, in_memory=False, **corpusargs)View on GitHub#
+__init__(domains='all', base_path=None, in_memory=False, **corpusargs)View on GitHub#

Initilize the NERMuD 2023 dataset.

NERMuD is a task presented at EVALITA 2023 consisting in the extraction and classification of named-entities in a document, such as persons, organizations, and locations. NERMuD 2023 will include two different sub-tasks:

@@ -1906,11 +1906,11 @@

Versions

-class flair.datasets.sequence_labeling.NER_GERMAN_MOBIE(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.NER_GERMAN_MOBIE(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: ColumnCorpus

-__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the German MobIE NER dataset.

The German MobIE Dataset was introduced in the MobIE paper (https://aclanthology.org/2021.konvens-1.22/).

This is a German-language dataset that has been human-annotated with 20 coarse- and fine-grained entity types, @@ -1928,11 +1928,11 @@

Versions

-class flair.datasets.sequence_labeling.MASAKHA_POS(languages='bam', version='v1', base_path=None, in_memory=True, **corpusargs)View on GitHub#
+class flair.datasets.sequence_labeling.MASAKHA_POS(languages='bam', version='v1', base_path=None, in_memory=True, **corpusargs)View on GitHub#

Bases: MultiCorpus

-__init__(languages='bam', version='v1', base_path=None, in_memory=True, **corpusargs)View on GitHub#
+__init__(languages='bam', version='v1', base_path=None, in_memory=True, **corpusargs)View on GitHub#

Initialize the MasakhaPOS corpus available on masakhane-io/masakhane-pos.

It consists of 20 African languages. Pass a language code or a list of language codes to initialize the corpus with the languages you require. If you pass “all”, all languages will be initialized. diff --git a/master/api/flair.data.html b/master/api/flair.data.html index 0debef98f..d3d0950d5 100644 --- a/master/api/flair.data.html +++ b/master/api/flair.data.html @@ -1025,7 +1025,7 @@

Versions

-class flair.data.Sentence(text, use_tokenizer=True, language_code=None, start_position=0)View on GitHub#
+class flair.data.Sentence(text, use_tokenizer=True, language_code=None, start_position=0)View on GitHub#

Bases: DataPoint

A Sentence is a list of tokens and is used to represent a sentence or text fragment.

@@ -1190,7 +1190,7 @@

Versions

-get_language_code()View on GitHub#
+get_language_code()View on GitHub#
Return type:

str

@@ -1200,7 +1200,7 @@

Versions

-next_sentence()View on GitHub#
+next_sentence()View on GitHub#

Get the next sentence in the document.

This only works if context is set through dataloader or elsewhere :return: next Sentence in document if set, otherwise None

@@ -1208,7 +1208,7 @@

Versions

-previous_sentence()View on GitHub#
+previous_sentence()View on GitHub#

Get the previous sentence in the document.

works only if context is set through dataloader or elsewhere :return: previous Sentence in document if set, otherwise None

@@ -1216,7 +1216,7 @@

Versions

-is_context_set()View on GitHub#
+is_context_set()View on GitHub#

Determines if this sentence has a context of sentences before or after set.

Return True or False depending on whether context is set (for instance in dataloader or elsewhere) :rtype: bool @@ -1225,7 +1225,7 @@

Versions

-copy_context_from_sentence(sentence)View on GitHub#
+copy_context_from_sentence(sentence)View on GitHub#
Return type:

None

@@ -1235,7 +1235,7 @@

Versions

-classmethod set_context_for_sentences(sentences)View on GitHub#
+classmethod set_context_for_sentences(sentences)View on GitHub#
Return type:

None

@@ -1245,28 +1245,28 @@

Versions

-get_labels(label_type=None)View on GitHub#
+get_labels(label_type=None)View on GitHub#
-remove_labels(typename)View on GitHub#
+remove_labels(typename)View on GitHub#
-class flair.data.DataPair(first, second)View on GitHub#
+class flair.data.DataPair(first, second)View on GitHub#

Bases: DataPoint, Generic[DT, DT2]

-to(device, pin_memory=False)View on GitHub#
+to(device, pin_memory=False)View on GitHub#
-clear_embeddings(embedding_names=None)View on GitHub#
+clear_embeddings(embedding_names=None)View on GitHub#
@@ -1298,7 +1298,7 @@

Versions

-class flair.data.Image(data=None, imageURL=None)View on GitHub#
+class flair.data.Image(data=None, imageURL=None)View on GitHub#

Bases: DataPoint

@@ -1329,7 +1329,7 @@

Versions

-class flair.data.Corpus(train=None, dev=None, test=None, name='corpus', sample_missing_splits=True)View on GitHub#
+class flair.data.Corpus(train=None, dev=None, test=None, name='corpus', sample_missing_splits=True)View on GitHub#

Bases: Generic[T_co]

@@ -1348,22 +1348,22 @@

Versions

-downsample(percentage=0.1, downsample_train=True, downsample_dev=True, downsample_test=True)View on GitHub#
+downsample(percentage=0.1, downsample_train=True, downsample_dev=True, downsample_test=True)View on GitHub#
-filter_empty_sentences()View on GitHub#
+filter_empty_sentences()View on GitHub#
-filter_long_sentences(max_charlength)View on GitHub#
+filter_long_sentences(max_charlength)View on GitHub#
-make_vocab_dictionary(max_tokens=-1, min_freq=1)View on GitHub#
+make_vocab_dictionary(max_tokens=-1, min_freq=1)View on GitHub#

Creates a dictionary of all tokens contained in the corpus.

By defining max_tokens you can set the maximum number of tokens that should be contained in the dictionary. If there are more than max_tokens tokens in the corpus, the most frequent tokens are added first. @@ -1385,7 +1385,7 @@

Versions

-obtain_statistics(label_type=None, pretty_print=True)View on GitHub#
+obtain_statistics(label_type=None, pretty_print=True)View on GitHub#

Print statistics about the class distribution and sentence sizes.

only labels of sentences are taken into account

@@ -1397,7 +1397,7 @@

Versions

-make_label_dictionary(label_type, min_count=-1, add_unk=False, add_dev_test=False)View on GitHub#
+make_label_dictionary(label_type, min_count=-1, add_unk=False, add_dev_test=False)View on GitHub#

Creates a dictionary of all labels assigned to the sentences in the corpus.

Return type:
@@ -1411,7 +1411,7 @@

Versions

-add_label_noise(label_type, labels, noise_share=0.2, split='train', noise_transition_matrix=None)View on GitHub#
+add_label_noise(label_type, labels, noise_share=0.2, split='train', noise_transition_matrix=None)View on GitHub#

Generates uniform label noise distribution in the chosen dataset split.

Parameters:
@@ -1429,12 +1429,12 @@

Versions

-get_label_distribution()View on GitHub#
+get_label_distribution()View on GitHub#
-get_all_sentences()View on GitHub#
+get_all_sentences()View on GitHub#
Return type:

ConcatDataset

@@ -1444,7 +1444,7 @@

Versions

-make_tag_dictionary(tag_type)View on GitHub#
+make_tag_dictionary(tag_type)View on GitHub#

Create a tag dictionary of a given label type.

Parameters:
@@ -1464,17 +1464,17 @@

Versions

-class flair.data.MultiCorpus(corpora, task_ids=None, name='multicorpus', **corpusargs)View on GitHub#
+class flair.data.MultiCorpus(corpora, task_ids=None, name='multicorpus', **corpusargs)View on GitHub#

Bases: Corpus

-class flair.data.FlairDataset(*args, **kwds)View on GitHub#
+class flair.data.FlairDataset(*args, **kwds)View on GitHub#

Bases: Dataset

-abstract is_in_memory()View on GitHub#
+abstract is_in_memory()View on GitHub#
Return type:

bool

@@ -1486,7 +1486,7 @@

Versions

-class flair.data.ConcatFlairDataset(datasets, ids)View on GitHub#
+class flair.data.ConcatFlairDataset(datasets, ids)View on GitHub#

Bases: Dataset

Dataset as a concatenation of multiple datasets.

This class is useful to assemble different existing datasets.

@@ -1497,7 +1497,7 @@

Versions

-static cumsum(sequence)View on GitHub#
+static cumsum(sequence)View on GitHub#
@@ -1519,7 +1519,7 @@

Versions

-flair.data.iob2(tags)View on GitHub#
+flair.data.iob2(tags)View on GitHub#

Converts the tags to the IOB2 format.

Check that tags have a valid IOB format. Tags in IOB1 format are converted to IOB2.

@@ -1527,12 +1527,12 @@

Versions

-flair.data.randomly_split_into_two_datasets(dataset, length_of_first)View on GitHub#
+flair.data.randomly_split_into_two_datasets(dataset, length_of_first)View on GitHub#
-flair.data.get_spans_from_bio(bioes_tags, bioes_scores=None)View on GitHub#
+flair.data.get_spans_from_bio(bioes_tags, bioes_scores=None)View on GitHub#
Return type:

List[Tuple[List[int], float, str]]

diff --git a/master/api/flair.html b/master/api/flair.html index 39759072d..1a94edd2e 100644 --- a/master/api/flair.html +++ b/master/api/flair.html @@ -560,7 +560,7 @@

Versions

-flair.set_proxies(proxies)View on GitHub#
+flair.set_proxies(proxies)View on GitHub#

Allows for data downloaded from urls to be forwarded to a proxy.

see https://requests.readthedocs.io/en/latest/user/advanced/#proxies

diff --git a/master/api/flair.nn.html b/master/api/flair.nn.html index 7bf5d9ee5..5cb323f7f 100644 --- a/master/api/flair.nn.html +++ b/master/api/flair.nn.html @@ -599,14 +599,14 @@

Versions

-class flair.nn.Classifier(*args, **kwargs)View on GitHub#
+class flair.nn.Classifier(*args, **kwargs)View on GitHub#

Bases: Model[DT], Generic[DT], ReduceTransformerVocabMixin, ABC

Abstract base class for all Flair models that do classification.

The classifier inherits from flair.nn.Model and adds unified functionality for both, single- and multi-label classification and evaluation. Therefore, it is ensured to have a fair comparison between multiple classifiers.

-evaluate(data_points, gold_label_type, out_path=None, embedding_storage_mode='none', mini_batch_size=32, main_evaluation_metric=('micro avg', 'f1-score'), exclude_labels=[], gold_label_dictionary=None, return_loss=True, **kwargs)View on GitHub#
+evaluate(data_points, gold_label_type, out_path=None, embedding_storage_mode='none', mini_batch_size=32, main_evaluation_metric=('micro avg', 'f1-score'), exclude_labels=[], gold_label_dictionary=None, return_loss=True, **kwargs)View on GitHub#

Evaluates the model. Returns a Result object containing evaluation results and a loss value.

Implement this to enable evaluation.

@@ -636,7 +636,7 @@

Versions

-abstract predict(sentences, mini_batch_size=32, return_probabilities_for_all_classes=False, verbose=False, label_name=None, return_loss=False, embedding_storage_mode='none')View on GitHub#
+abstract predict(sentences, mini_batch_size=32, return_probabilities_for_all_classes=False, verbose=False, label_name=None, return_loss=False, embedding_storage_mode='none')View on GitHub#

Predicts the class labels for the given sentences.

The labels are directly added to the sentences.

@@ -656,7 +656,7 @@

Versions

-get_used_tokens(corpus, context_length=0, respect_document_boundaries=True)View on GitHub#
+get_used_tokens(corpus, context_length=0, respect_document_boundaries=True)View on GitHub#
Return type:

Iterable[List[str]]

@@ -666,7 +666,7 @@

Versions

-classmethod load(model_path)View on GitHub#
+classmethod load(model_path)View on GitHub#

Loads the model from the given file.

Parameters:
@@ -683,7 +683,7 @@

Versions

-class flair.nn.DefaultClassifier(embeddings, label_dictionary, final_embedding_size, dropout=0.0, locked_dropout=0.0, word_dropout=0.0, multi_label=False, multi_label_threshold=0.5, loss_weights=None, decoder=None, inverse_model=False, train_on_gold_pairs_only=False, should_embed_sentence=True)View on GitHub#
+class flair.nn.DefaultClassifier(embeddings, label_dictionary, final_embedding_size, dropout=0.0, locked_dropout=0.0, word_dropout=0.0, multi_label=False, multi_label_threshold=0.5, loss_weights=None, decoder=None, inverse_model=False, train_on_gold_pairs_only=False, should_embed_sentence=True)View on GitHub#

Bases: Classifier[DT], Generic[DT, DT2], ABC

Default base class for all Flair models that do classification.

It inherits from flair.nn.Classifier and thus from flair.nn.Model. All features shared by all classifiers are @@ -692,7 +692,7 @@

Versions

TextPairClassifier and TokenClassifier.

-_filter_data_point(data_point)View on GitHub#
+_filter_data_point(data_point)View on GitHub#

Specify if a data point should be kept.

That way you can remove for example empty texts. Per default all datapoints that have length zero will be removed. @@ -706,7 +706,7 @@

Versions

-abstract _get_data_points_from_sentence(sentence)View on GitHub#
+abstract _get_data_points_from_sentence(sentence)View on GitHub#

Returns the data_points to which labels are added.

The results should be of any type that inherits from DataPoint (Sentence, Span, Token, … objects).

@@ -718,7 +718,7 @@

Versions

-_get_data_points_for_batch(sentences)View on GitHub#
+_get_data_points_for_batch(sentences)View on GitHub#

Returns the data_points to which labels are added.

The results should be of any type that inherits from DataPoint (Sentence, Span, Token, … objects).

@@ -730,7 +730,7 @@

Versions

-_get_label_of_datapoint(data_point)View on GitHub#
+_get_label_of_datapoint(data_point)View on GitHub#

Extracts the labels from the data points.

Each data point might return a list of strings, representing multiple labels.

diff --git a/master/api/flair.trainers.html b/master/api/flair.trainers.html index 223164990..4d457523b 100644 --- a/master/api/flair.trainers.html +++ b/master/api/flair.trainers.html @@ -643,27 +643,27 @@

Versions

-class flair.trainers.LanguageModelTrainer(model, corpus, optimizer=<class 'torch.optim.sgd.SGD'>, test_mode=False, epoch=0, split=0, loss=10000, optimizer_state=None, scaler_state=None)View on GitHub#
+class flair.trainers.LanguageModelTrainer(model, corpus, optimizer=<class 'torch.optim.sgd.SGD'>, test_mode=False, epoch=0, split=0, loss=10000, optimizer_state=None, scaler_state=None)View on GitHub#

Bases: object

-train(base_path, sequence_length, learning_rate=20, mini_batch_size=100, anneal_factor=0.25, patience=10, clip=0.25, max_epochs=1000, checkpoint=False, grow_to_sequence_length=0, num_workers=2, use_amp=False, **kwargs)View on GitHub#
+train(base_path, sequence_length, learning_rate=20, mini_batch_size=100, anneal_factor=0.25, patience=10, clip=0.25, max_epochs=1000, checkpoint=False, grow_to_sequence_length=0, num_workers=2, use_amp=False, **kwargs)View on GitHub#
-evaluate(data_source, eval_batch_size, sequence_length)View on GitHub#
+evaluate(data_source, eval_batch_size, sequence_length)View on GitHub#
-static _repackage_hidden(h)View on GitHub#
+static _repackage_hidden(h)View on GitHub#

Wraps hidden states in new tensors, to detach them from their history.

-static load_checkpoint(checkpoint_file, corpus, optimizer=<class 'torch.optim.sgd.SGD'>)View on GitHub#
+static load_checkpoint(checkpoint_file, corpus, optimizer=<class 'torch.optim.sgd.SGD'>)View on GitHub#
diff --git a/master/api/flair.trainers.plugins.html b/master/api/flair.trainers.plugins.html index a361a54ff..6ad9b369d 100644 --- a/master/api/flair.trainers.plugins.html +++ b/master/api/flair.trainers.plugins.html @@ -536,7 +536,7 @@

Versions

flair.trainers.plugins#

-class flair.trainers.plugins.AnnealingPlugin(base_path, min_learning_rate, anneal_factor, patience, initial_extra_patience, anneal_with_restarts)View on GitHub#
+class flair.trainers.plugins.AnnealingPlugin(base_path, min_learning_rate, anneal_factor, patience, initial_extra_patience, anneal_with_restarts)View on GitHub#

Bases: TrainerPlugin

Plugin for annealing logic in Flair.

@@ -546,19 +546,19 @@

Versions

-after_setup(train_with_dev, optimizer, **kw)View on GitHub#
+after_setup(train_with_dev, optimizer, **kw)View on GitHub#

Initialize different schedulers, including anneal target for AnnealOnPlateau, batch_growth_annealing, loading schedulers.

-after_evaluation(current_model_is_best, validation_scores, **kw)View on GitHub#
+after_evaluation(current_model_is_best, validation_scores, **kw)View on GitHub#

Scheduler step of AnnealOnPlateau.

-get_state()View on GitHub#
+get_state()View on GitHub#
Return type:

Dict[str, Any]

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