Mercurial > repos > yhoogstrate > featurecounts
comparison featurecounts.xml @ 6:fae19d64e9de draft
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| author | yhoogstrate |
|---|---|
| date | Thu, 13 Nov 2014 09:46:22 -0500 |
| parents | 31279ea9fbfa |
| children | 2312bedfe2a3 |
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| 5:31279ea9fbfa | 6:fae19d64e9de |
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| 1 <?xml version="1.0" encoding="UTF-8"?> | 1 <?xml version="1.0" encoding="UTF-8"?> |
| 2 <tool id="featurecounts" name="featureCounts"> | 2 <tool id="featurecounts" name="featureCounts" version="1.4.4.a"> |
| 3 <description>Measure gene expression in RNA-Seq experiments from SAM or BAM files.</description> | 3 <description>Measure gene expression in RNA-Seq experiments from SAM or BAM files.</description> |
| 4 <requirements> | 4 <requirements> |
| 5 <requirement type="package" version="1.4.4">featurecounts</requirement> | 5 <requirement type="package" version="1.4.4">featurecounts</requirement> |
| 6 <requirement type="package" version="1.0.0">featurecounts2bed</requirement> | 6 <requirement type="package" version="1.0.0">featurecounts2bed</requirement> |
| 7 </requirements> | 7 </requirements> |
| 8 <version_command>featureCounts -v</version_command> | |
| 8 <command> | 9 <command> |
| 9 <!-- | 10 <!-- |
| 10 The following script is written in the "Cheetah" language: | 11 The following script is written in the "Cheetah" language: |
| 11 http://www.cheetahtemplate.org/docs/users_guide_html_multipage/contents.html | 12 http://www.cheetahtemplate.org/docs/users_guide_html_multipage/contents.html |
| 12 --> | 13 --> |
| 224 References | 225 References |
| 225 ---------- | 226 ---------- |
| 226 | 227 |
| 227 **featureCounts: an efficient general purpose program for assigning sequence reads to genomic features.** | 228 **featureCounts: an efficient general purpose program for assigning sequence reads to genomic features.** |
| 228 | 229 |
| 229 *Liao Y1, Smyth GK, Shi W.* Bioinformatics. 2014 Apr 1;30(7):923-30. | 230 *Liao Y1, Smyth GK, Shi W.* - Bioinformatics. 2014 Apr 1;30(7):923-30. |
| 230 | 231 |
| 231 - http://www.ncbi.nlm.nih.gov/pubmed/24227677 | 232 - http://www.ncbi.nlm.nih.gov/pubmed/24227677 |
| 232 - http://dx.doi.org/10.1093/bioinformatics/btt656 | 233 - http://dx.doi.org/10.1093/bioinformatics/btt656 |
| 233 | 234 |
| 234 | 235 |
| 240 - GNU General Public License version 3.0 (GPLv3) | 241 - GNU General Public License version 3.0 (GPLv3) |
| 241 | 242 |
| 242 Contact | 243 Contact |
| 243 ------- | 244 ------- |
| 244 | 245 |
| 245 The tool wrapper has been written by Youri Hoogstrate from the Erasmus Medical Center (Rotterdam, Netherlands) on behalf of the Translational Research IT (TraIT) project: | 246 The tool wrapper has been written by Youri Hoogstrate from the Erasmus |
| 247 Medical Center (Rotterdam, Netherlands) on behalf of the Translational | |
| 248 Research IT (TraIT) project: | |
| 246 http://www.ctmm.nl/en/programmas/infrastructuren/traitprojecttranslationeleresearch | 249 http://www.ctmm.nl/en/programmas/infrastructuren/traitprojecttranslationeleresearch |
| 247 | 250 |
| 248 I want to thank the Marius van den Beek for his contribution to this wrapper. | 251 More tools by the Translational Research IT (TraIT) project can be found |
| 249 | 252 in the following toolsheds: |
| 250 More tools by the Translational Research IT (TraIT) project can be found in the following repository: | 253 - http://toolshed.dtls.nl/ |
| 251 http://testtoolshed.g2.bx.psu.edu/ | 254 - http://toolshed.g2.bx.psu.edu |
| 252 | 255 - http://testtoolshed.g2.bx.psu.edu/ |
| 253 </help> | 256 </help> |
| 254 </tool> | 257 </tool> |