Mercurial > repos > iuc > featurecounts
comparison featurecounts.xml @ 4:d417fb66494e draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/featurecounts commit 57dfb61ba50ecfbe8f1c624fdbe2d0a3a8deaa04
| author | iuc |
|---|---|
| date | Thu, 26 Jan 2017 12:33:53 -0500 |
| parents | dae123c03a74 |
| children | 9d60a36b5c6a |
comparison
equal
deleted
inserted
replaced
| 3:dae123c03a74 | 4:d417fb66494e |
|---|---|
| 384 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> | 384 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> |
| 385 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> | 385 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> |
| 386 <param name="format" value="tabdel_short" /> | 386 <param name="format" value="tabdel_short" /> |
| 387 <param name="include_feature_length_file" value="true"/> | 387 <param name="include_feature_length_file" value="true"/> |
| 388 <param name="ref_source" value="history" /> | 388 <param name="ref_source" value="history" /> |
| 389 <output name="output" file="output_1_short.tab"/> | 389 <output name="output_short" file="output_1_short.tab"> |
| 390 <metadata name="column_names" value="Geneid,featureCounts_input1.bam"/> | |
| 391 </output> | |
| 390 <output name="output_summary" file="output_1_summary.tab"/> | 392 <output name="output_summary" file="output_1_summary.tab"/> |
| 391 </test> | 393 </test> |
| 392 <test> | 394 <test> |
| 393 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> | 395 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> |
| 394 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> | 396 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> |
| 395 <param name="format" value="tabdel_medium" /> | 397 <param name="format" value="tabdel_medium" /> |
| 396 <param name="include_feature_length_file" value="true"/> | 398 <param name="include_feature_length_file" value="true"/> |
| 397 <param name="ref_source" value="history" /> | 399 <param name="ref_source" value="history" /> |
| 398 <output name="output" file="output_1_medium.tab"/> | 400 <output name="output_medium" file="output_1_medium.tab"> |
| 399 <output name="output_summary" file="output_1_summary.tab"/> | 401 <metadata name="column_names" value="Geneid,featureCounts_input1.bam,Length"/> |
| 402 </output> | |
| 403 <output name="output_summary" file="output_1_summary.tab"> | |
| 404 <metadata name="column_names" value="Status,featureCounts_input1.bam"/> | |
| 405 </output> | |
| 400 </test> | 406 </test> |
| 401 <test> | 407 <test> |
| 402 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> | 408 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> |
| 403 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> | 409 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> |
| 404 <param name="format" value="tabdel_full" /> | 410 <param name="format" value="tabdel_full" /> |
| 405 <param name="include_feature_length_file" value="true"/> | 411 <param name="include_feature_length_file" value="true"/> |
| 406 <param name="ref_source" value="history" /> | 412 <param name="ref_source" value="history" /> |
| 407 <output name="output" file="output_1_full.tab"/> | 413 <output name="output_full" file="output_1_full.tab"> |
| 408 <output name="output_summary" file="output_1_summary.tab"/> | 414 <metadata name="column_names" value="Geneid,Chr,Start,End,Strand,Length,featureCounts_input1.bam"/> |
| 409 <output name="output_feature_lengths" file="output_feature_lengths.tab"/> | 415 </output> |
| 416 <output name="output_summary" file="output_1_summary.tab"> | |
| 417 <metadata name="column_names" value="Status,featureCounts_input1.bam"/> | |
| 418 </output> | |
| 419 <output name="output_feature_lengths" file="output_feature_lengths.tab"> | |
| 420 <metadata name="column_names" value="Feature,Length"/> | |
| 421 </output> | |
| 410 </test> | 422 </test> |
| 411 | 423 |
| 412 <test> | 424 <test> |
| 413 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> | 425 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> |
| 414 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> | 426 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> |
| 415 <param name="format" value="tabdel_short" /> | 427 <param name="format" value="tabdel_short" /> |
| 416 <param name="include_feature_length_file" value="true"/> | 428 <param name="include_feature_length_file" value="true"/> |
| 417 <param name="ref_source" value="history" /> | 429 <param name="ref_source" value="history" /> |
| 418 <output name="output" file="output_2_short.tab"/> | 430 <output name="output_short" file="output_2_short.tab"> |
| 419 <output name="output_summary" file="output_2_summary.tab"/> | 431 <metadata name="column_names" value="Geneid,featureCounts_input1.bam"/> |
| 432 </output> | |
| 433 <output name="output_summary" file="output_2_summary.tab"> | |
| 434 <metadata name="column_names" value="Status,featureCounts_input1.bam"/> | |
| 435 </output> | |
| 420 </test> | 436 </test> |
| 421 <test> | 437 <test> |
| 422 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> | 438 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> |
| 423 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> | 439 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> |
| 424 <param name="format" value="tabdel_medium" /> | 440 <param name="format" value="tabdel_medium" /> |
| 425 <param name="include_feature_length_file" value="true"/> | 441 <param name="include_feature_length_file" value="true"/> |
| 426 <param name="ref_source" value="history" /> | 442 <param name="ref_source" value="history" /> |
| 427 <output name="output" file="output_2_medium.tab"/> | 443 <output name="output_medium" file="output_2_medium.tab"> |
| 428 <output name="output_summary" file="output_2_summary.tab"/> | 444 <metadata name="column_names" value="Geneid,featureCounts_input1.bam,Length"/> |
| 445 </output> | |
| 446 <output name="output_summary" file="output_2_summary.tab"> | |
| 447 <metadata name="column_names" value="Status,featureCounts_input1.bam"/> | |
| 448 </output> | |
| 429 </test> | 449 </test> |
| 430 <test> | 450 <test> |
| 431 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> | 451 <param name="alignment" value="featureCounts_input1.bam" ftype="bam" /> |
| 432 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> | 452 <param name="reference_gene_sets" value="featureCounts_guide.gff" ftype="gff" /> |
| 433 <param name="format" value="tabdel_full" /> | 453 <param name="format" value="tabdel_full" /> |
| 434 <param name="include_feature_length_file" value="true"/> | 454 <param name="include_feature_length_file" value="true"/> |
| 435 <param name="ref_source" value="history" /> | 455 <param name="ref_source" value="history" /> |
| 436 <output name="output" file="output_2_full.tab"/> | 456 <output name="output_full" file="output_2_full.tab"> |
| 437 <output name="output_summary" file="output_2_summary.tab"/> | 457 <metadata name="column_names" value="Geneid,Chr,Start,End,Strand,Length,featureCounts_input1.bam"/> |
| 438 <output name="output_feature_lengths" file="output_feature_lengths.tab"/> | 458 </output> |
| 459 <output name="output_summary" file="output_2_summary.tab"> | |
| 460 <metadata name="column_names" value="Status,featureCounts_input1.bam"/> | |
| 461 </output> | |
| 462 <output name="output_feature_lengths" file="output_feature_lengths.tab"> | |
| 463 <metadata name="column_names" value="Feature,Length"/> | |
| 464 </output> | |
| 439 </test> | 465 </test> |
| 440 </tests> | 466 </tests> |
| 441 | 467 |
| 442 <help><![CDATA[ | 468 <help><![CDATA[ |
| 443 featureCounts | 469 featureCounts |