-
Notifications
You must be signed in to change notification settings - Fork 1
/
climate.yml
601 lines (601 loc) · 22.9 KB
/
climate.yml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486
487
488
489
490
491
492
493
494
495
496
497
498
499
500
501
502
503
504
505
506
507
508
509
510
511
512
513
514
515
516
517
518
519
520
521
522
523
524
525
526
527
528
529
530
531
532
533
534
535
536
537
538
539
540
541
542
543
544
545
546
547
548
549
550
551
552
553
554
555
556
557
558
559
560
561
562
563
564
565
566
567
568
569
570
571
572
573
574
575
576
577
578
579
580
581
582
583
584
585
586
587
588
589
590
591
592
593
594
595
596
597
598
599
600
601
id: climate
items:
- id: get_data
items:
- id: toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_genetree/get_genetree
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ebi_search_rest_results/ebi_search_rest_results
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/uniprot_rest_interface/uniprot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/dbbuilder/dbbuilder
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_epost/ncbi_eutils_epost
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_genome
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ebi_metagenomics_run_downloader/ebi_metagenomics_run_downloader
type: tool
- id: upload1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ega_download_client/pyega3
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_datasets/datasets_download_gene
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fastq_dump
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_elink/ncbi_eutils_elink
type: tool
- id: toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_feature_info/get_feature_info
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_ecitmatch/ncbi_eutils_ecitmatch
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/sra_pileup
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_acc_download/ncbi_acc_download
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_egquery/ncbi_eutils_egquery
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/fasterq_dump
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_esearch/ncbi_eutils_esearch
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/uniprotxml_downloader/uniprotxml_downloader
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_esummary/ncbi_eutils_esummary
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/pysradb_search/pysradb_search
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_einfo/ncbi_eutils_einfo
type: tool
- id: lftp
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/enasearch_retrieve_data/enasearch_retrieve_data
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/enasearch_retrieve_run_report/enasearch_retrieve_run_report
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/enasearch_retrieve_taxons/enasearch_retrieve_taxons
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/sra_tools/sam_dump
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/enasearch_search_data/enasearch_search_data
type: tool
- id: microbial_import1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/iedb_api/iedb_api
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/spocc_occ/spocc_occ
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/enasearch_retrieve_analysis_report/enasearch_retrieve_analysis_report
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ncbi_eutils_efetch/ncbi_eutils_efetch
type: tool
- id: toolshed.g2.bx.psu.edu/repos/earlhaminst/ensembl_get_sequences/get_sequences
type: tool
name: Get Data
type: section
- id: send_data
items:
- id: toolshed.g2.bx.psu.edu/repos/imgteam/curl_post/curl_post
type: tool
- id: send_to_cloud
type: tool
- id: export_remote
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ena_upload/ena_upload
type: tool
name: Send Data
type: section
- id: collection_operations
items:
- id: toolshed.g2.bx.psu.edu/repos/imgteam/unzip/unzip
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/collection_column_join/collection_column_join
type: tool
- id: toolshed.g2.bx.psu.edu/repos/nml/collapse_collections/collapse_dataset
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/split_file_to_collection/split_file_to_collection
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/split_file_on_column/tp_split_on_column
type: tool
name: Collection Operations
type: section
- id: general_text_label
text: General Text Tools
type: label
- id: text_manipulation
items:
- id: toolshed.g2.bx.psu.edu/repos/devteam/coverage/gops_coverage_1
type: tool
- id: wc_gnu
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_uniq_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/jq/jq
type: tool
- id: cat1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/join_files_on_column_fuzzy/join_files_on_column_fuzzy
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_head_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_tac
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/reshape2_melt/melt
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/add_line_to_file/add_line_to_file
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/subtract/gops_subtract_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_header_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/dna_filtering/histogram_rpy
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/flanking_features/flanking_features_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_unfold_column_tool
type: tool
- id: Convert characters1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/prinseq/prinseq
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/sqlite_to_tabular/sqlite_to_tabular
type: tool
- id: trimmer
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/merge/gops_merge_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/filter_tabular/filter_tabular
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/intersect/gops_intersect_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_awk_tool
type: tool
- id: Remove beginning1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/gff3_rebase/gff3.rebase
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_text_file_with_recurring_lines
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cut_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/mvdbeek/add_input_name_as_column/addName
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/table_compute/table_compute
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/get_flanks/get_flanks1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/imgteam/imagecoordinates_flipaxis/imagecoordinates_flipaxis
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/column_order_header_sort/column_order_header_sort
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_multijoin_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/reshape2_cast/cast
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_find_and_replace
type: tool
- id: Show tail1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/earlhaminst/replace_chromosome_names/replace_chromosome_names
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/replace_column_by_key_value_file/replace_column_with_key_value_file
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/diff/diff
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/subtract_query/subtract_query1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/basecoverage/gops_basecoverage_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/tables_arithmetic_operations/tables_arithmetic_operations
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/artbio/concatenate_multiple_datasets/cat_multi_datasets
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sed_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_line
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/merge_cols/mergeCols1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sorted_uniq
type: tool
- id: Paste1
type: tool
- id: ChangeCase
type: tool
- id: Show beginning1
type: tool
- id: random_lines1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular
type: tool
- id: addValue
type: tool
- id: toolshed.g2.bx.psu.edu/repos/kellrott/regex_replace/regex_replace
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_replace_in_column
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/complement/gops_complement_1
type: tool
- id: createInterval
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/add_value/addValue
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_tail_tool
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sort_rows
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/column_remove_by_header/column_remove_by_header
type: tool
- id: secure_hash_message_digest
type: tool
- id: Cut1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/split_file_on_column/tp_split_on_column
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regex1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/cluster/gops_cluster_1
type: tool
name: Text Manipulation
type: section
- id: filter_and_sort
items:
- id: gff_filter_by_feature_count
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids
type: tool
- id: toolshed.g2.bx.psu.edu/repos/peterjc/sample_seqs/sample_seqs
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/column_arrange_by_header/bg_column_arrange_by_header
type: tool
- id: gtf_filter_by_attribute_values_list
type: tool
- id: gff_filter_by_attribute
type: tool
- id: Extract_features1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/xpath/xpath
type: tool
- id: toolshed.g2.bx.psu.edu/repos/jjohnson/find_in_reference/find_in_reference
type: tool
- id: toolshed.g2.bx.psu.edu/repos/peterjc/seq_filter_by_id/seq_filter_by_id
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/gffcompare/gffcompare
type: tool
- id: sort1
type: tool
- id: Grep1
type: tool
- id: Filter1
type: tool
name: Filter and Sort
type: section
- id: join__subtract_and_group
items:
- id: Grouping1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops/datamash_ops
type: tool
- id: comp1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/collection_column_join/collection_column_join
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/subtract/gops_subtract_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/datamash_ops/datamash_ops
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/datamash_reverse/datamash_reverse
type: tool
- id: join1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/datamash_transpose/datamash_transpose
type: tool
name: Join, Subtract and Group
type: section
- id: convert_formats
items:
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/mz_to_sqlite/mz_to_sqlite
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab
type: tool
- id: toolshed.g2.bx.psu.edu/repos/cpt/cpt_convert_mga/edu.tamu.cpt2.util.mga_to_gff3
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/crossmap_bed/crossmap_bed
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/crossmap_vcf/crossmap_vcf
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/xmlstarlet/xmlstarlet
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/interval2maf/Interval2Maf1
type: tool
- id: Sff_extractor
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/thermo_raw_file_converter/thermo_raw_file_converter
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/map_peptides_to_bed/map_peptides_to_bed
type: tool
- id: axt_to_fasta
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/gffcompare_to_bed/gffcompare_to_bed
type: tool
- id: wig_to_bigWig
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/intermine_galaxy_exchange/galaxy_intermine_exchange
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/crossmap_bam/crossmap_bam
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/resize_coordinate_window/resize_coordinate_window
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/crossmap_gff/crossmap_gff
type: tool
- id: MAF_To_BED1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/idconvert
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/idpquery/idpquery
type: tool
- id: lav_to_bed1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/biom_convert/biom_convert
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ucsc_twobittofa/ucsc-twobittofa
type: tool
- id: MAF_To_Interval1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/bioext_bam2msa/bioext_bam2msa
type: tool
- id: wiggle2simple1
type: tool
- id: axt_to_lav_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/bed_to_protein_map/bed_to_protein_map
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert_subset
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/genebed_maf_to_fasta/GeneBed_Maf_Fasta2
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/tab2fasta
type: tool
- id: liftOver1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/bam_to_scidx/bam_to_scidx
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/bax2bam/bax2bam
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/gtftobed12/gtftobed12
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/compress_file/compress_file
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/samtools_bam_to_cram/samtools_bam_to_cram
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/idconvert/idconvert
type: tool
- id: bed_to_bigBed
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_convert/graphicsmagick_image_convert
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/crossmap_wig/crossmap_wig
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/gffread/gffread
type: tool
- id: bed2gff1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/msconvert/msconvert
type: tool
- id: toolshed.g2.bx.psu.edu/repos/cpt/cpt_fix_aragorn/edu.tamu.cpt.external.aragorn-gff3
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fastq/tabular_to_fastq
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/crossmap_region/crossmap_region
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/gfa_to_fa/gfa_to_fa
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/graphicsmagick_image_montage/graphicsmagick_image_montage
type: tool
- id: toolshed.g2.bx.psu.edu/repos/galaxyp/msms_extractor/msms_extractor
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/ab1_fastq_converter/ab1_fastq_converter
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/bigwig_to_bedgraph/bigwig_to_bedgraph
type: tool
- id: gff2bed1
type: tool
- id: MAF_To_Fasta1
type: tool
- id: gtf2bedgraph
type: tool
- id: axt_to_concat_fasta
type: tool
name: Convert Formats
type: section
- id: graph_display_data
items:
- id: toolshed.g2.bx.psu.edu/repos/guru-ananda/karyotype_plot/karyotype_Plot_1
type: tool
- id: vcf_to_maf_customtrack1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/scatterplot/scatterplot_rpy
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/export2graphlan/export2graphlan
type: tool
- id: barchart_gnuplot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_pca/ggplot2_pca
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/plotly_regression_performance_plots/plotly_regression_performance_plots
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/jvarkit_wgscoverageplotter/jvarkit_wgscoverageplotter
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/graphlan_annotate/graphlan_annotate
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/volcanoplot/volcanoplot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/newick_utils/newick_display
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/plotly_parallel_coordinates_plot/plotly_parallel_coordinates_plot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_interval_to_text
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/geneiobio/gene_iobio_display_generation_iframe
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse_to_standalone
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/fasta_nucleotide_color_plot/fasta_nucleotide_color_plot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/gmaj/gmaj_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/pe_histogram/pe_histogram
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_heatmap/ggplot2_heatmap
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/pretext_snapshot/pretext_snapshot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/intervene/intervene_upset
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/ucsc_custom_track/build_ucsc_custom_track_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_aln_to_links
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/fasta_nucleotide_color_plot/four_color_plot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_point/ggplot2_point
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_image
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_info
type: tool
- id: toolshed.g2.bx.psu.edu/repos/artbio/pathifier/pathifier
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse
type: tool
- id: toolshed.g2.bx.psu.edu/repos/crs4/taxonomy_krona_chart/taxonomy_krona_chart
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/pathview/pathview
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_interval_to_tile
type: tool
- id: toolshed.g2.bx.psu.edu/repos/peterjc/venn_list/venn_list
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_resample
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/pygenometracks/pygenomeTracks
type: tool
- id: toolshed.g2.bx.psu.edu/repos/peterjc/mummer/mummerplot_wrapper
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_wiggle_to_scatter
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/histogram/histogram_rpy
type: tool
- id: toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_heatmap2/ggplot2_heatmap2
type: tool
- id: toolshed.g2.bx.psu.edu/repos/saskia-hiltemann/krona_text/krona-text
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_histogram/ggplot2_histogram
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/graphlan/graphlan
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_tableviewer
type: tool
- id: qual_stats_boxplot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_bundlelinks
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/ggplot2_violin/ggplot2_violin
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/intervene/intervene_pairwise
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_gc_skew
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_wiggle_to_stacked
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/tsne/tsne
type: tool
- id: toolshed.g2.bx.psu.edu/repos/devteam/xy_plot/XY_Plot_1
type: tool
- id: toolshed.g2.bx.psu.edu/repos/iuc/circos/circos_binlinks
type: tool
name: Graph/Display Data
type: section
- id: gis_data_handling
items:
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_gdalwarp/gdal_gdalwarp
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_gdal_merge/gdal_gdal_merge
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_gdalinfo/gdal_gdalinfo
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_ogr2ogr/gdal_ogr2ogr
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/xarray_coords_info/xarray_coords_info
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/xarray_netcdf2netcdf/xarray_netcdf2netcdf
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_gdaladdo/gdal_gdaladdo
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_ogrinfo/gdal_ogrinfo
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/xarray_metadata_info/xarray_metadata_info
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_gdal_translate/gdal_gdal_translate
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/xarray_mapplot/xarray_mapplot
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/xarray_select/xarray_select
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/gdal_gdalbuildvrt/gdal_gdalbuildvrt
type: tool
name: GIS Data Handling
type: section
- id: climate_analysis
items:
- id: toolshed.g2.bx.psu.edu/repos/climate/climate_stripes/climate_stripes
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/psy_maps/psy_maps
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/cads/cads
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/c3s/c3s
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/cdo_operations/cdo_operations
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/cdo_info/cdo_info
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/mean_per_zone/mean_per_zone
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/shift_longitudes/shyft_longitudes
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/cds_essential_variability/cds_essential_variability
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/cesm/cesm
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/ctsm_fates/ctsm_fates
type: tool
- id: toolshed.g2.bx.psu.edu/repos/ecology/timeseries_extraction/timeseries_extraction
type: tool
- id: toolshed.g2.bx.psu.edu/repos/climate/eodie/eodie
type: tool
name: Climate Analysis
type: section
name: Climate Science
type: activity