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39 Open 13 Closed
39 Open 13 Closed
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Issues list

visualize cosine similarity scores to wikipathways guiding terms
#93 opened Feb 27, 2024 by bsantan
report random cosine similarity metrics via permutation of intermediate nodes
#92 opened Feb 27, 2024 by bsantan
report average cosine similarity metric for all nodes within a subgraph to a guiding term
#91 opened Feb 27, 2024 by bsantan
@bsantan
select guiding term for each wikipathways diagram based on paper
#90 opened Feb 27, 2024 by bsantan
@lagillenwater @bsantan
visualize evaluation metrics for ontology types of wiki pathways subgraphs
#89 opened Feb 27, 2024 by bsantan
@bsantan
Modify cosine similarity based graph extraction to take into account guiding terms
#87 opened Feb 15, 2024 by bsantan
@bsantan
Parameterize the input format (i.e., pre-defined graph or list of entities)
#86 opened Feb 15, 2024 by bsantan
Define specific versions of packages in environment.yml
#85 opened Feb 15, 2024 by bsantan
@bsantan
Select 1 node when there is an exact match for duplicate node labels
#84 opened Feb 15, 2024 by bsantan
Handle placeholder nodes in wiki pathways diagrams
#83 opened Feb 15, 2024 by bsantan
Separate indexing step and subgraph generation step in wikipathways pipeline
#82 opened Feb 15, 2024 by bsantan
@bsantan
Keep track of nodes that do not have a URI from Wikipathways metadata or node normalizer
#81 opened Feb 13, 2024 by bsantan
@bsantan
Perform node matching using node normalizer API
#79 opened Feb 11, 2024 by bsantan
@bsantan
Use node metadata files from wikipathways to find exact node IDs in indexing step
#78 opened Feb 10, 2024 by bsantan
@bsantan
Use node synonyms to perform matching and add node IDs
#76 opened Feb 8, 2024 by bsantan
@bsantan
wikpathways converter take PFOCR_URL as list input
#75 opened Feb 8, 2024 by lagillenwater
@lagillenwater
Create Graph Similarity Evaluation Function
#74 opened Feb 8, 2024 by bsantan
@bsantan
Create Overlap Evaluation Function
#73 opened Feb 8, 2024 by bsantan
@bsantan
Create Jaccard Evaluation Function
#67 opened Feb 2, 2024 by bsantan
@bsantan
Guiding term action for KG-covid19
#65 opened Jan 26, 2024 by bsantan
@bsantan
Generate all _annotated_diagrams for PFOCR list
#61 opened Jan 23, 2024 by lagillenwater
@lagillenwater
Create Zenodo project for Cartoomics data/outputs
#60 opened Jan 23, 2024 by lagillenwater
@bsantan
Create wrapper to run over PFOCR wikipathway graphs Part 1
#59 opened Jan 23, 2024 by lagillenwater
@lagillenwater
Find collection of metapaths in collection of wikipathways graphs
#58 opened Jan 23, 2024 by lagillenwater
@bsantan
Automatically choose exact matches for labels
#57 opened Jan 18, 2024 by lagillenwater
@bsantan
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