Mercurial > repos > iuc > featurecounts
comparison featurecounts.xml @ 25:9f24599f93e5 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/featurecounts commit 809715c88721d082b304cf4e4a37b52d30162f08"
| author | iuc |
|---|---|
| date | Fri, 06 Sep 2019 11:07:33 -0400 |
| parents | dfa29fefb36a |
| children | 48a5ee6c175c |
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| 24:dfa29fefb36a | 25:9f24599f93e5 |
|---|---|
| 1 <tool id="featurecounts" name="featureCounts" version="1.6.4" profile="16.04"> | 1 <tool id="featurecounts" name="featureCounts" version="1.6.4+galaxy1" profile="16.04"> |
| 2 <description>Measure gene expression in RNA-Seq experiments from SAM or BAM files.</description> | 2 <description>Measure gene expression in RNA-Seq experiments from SAM or BAM files.</description> |
| 3 <requirements> | 3 <requirements> |
| 4 <requirement type="package" version="1.6.4">subread</requirement> | 4 <requirement type="package" version="1.6.4">subread</requirement> |
| 5 <requirement type="package" version="1.9">samtools</requirement> | 5 <requirement type="package" version="1.9">samtools</requirement> |
| 6 <requirement type="package" version="8.31">coreutils</requirement> | 6 <requirement type="package" version="8.31">coreutils</requirement> |
| 143 <option value="history">in your history</option> | 143 <option value="history">in your history</option> |
| 144 </param> | 144 </param> |
| 145 <when value="builtin"> | 145 <when value="builtin"> |
| 146 <param name="bgenome" type="select" label="Select built-in genome" help="Built-in gene annotations for genomes hg38, hg19, mm10 and mm9 are included in featureCounts"> | 146 <param name="bgenome" type="select" label="Select built-in genome" help="Built-in gene annotations for genomes hg38, hg19, mm10 and mm9 are included in featureCounts"> |
| 147 <options from_data_table="featurecounts_anno"> | 147 <options from_data_table="featurecounts_anno"> |
| 148 <filter type="data_meta" key="dbkey" ref="alignment" column="0"/> | 148 <filter type="data_meta" key="dbkey" ref="alignment" column="dbkey"/> |
| 149 </options> | 149 </options> |
| 150 </param> | 150 </param> |
| 151 </when> | 151 </when> |
| 152 <when value="cached"> | 152 <when value="cached"> |
| 153 <param name="reference_gene_sets_builtin" type="select" label="Using locally cached annotation" help="If the annotation file you require is not listed here, please contact the Galaxy administrator"> | 153 <param name="reference_gene_sets_builtin" type="select" label="Using locally cached annotation" help="If the annotation file you require is not listed here, please contact the Galaxy administrator"> |
| 154 <options from_data_table="gene_sets"> | 154 <options from_data_table="gene_sets"> |
| 155 <filter type="data_meta" key="dbkey" ref="alignment" column="0"/> | 155 <filter type="data_meta" key="dbkey" ref="alignment" column="dbkey"/> |
| 156 <filter type="sort_by" column="2" /> | |
| 156 </options> | 157 </options> |
| 157 <validator type="no_options" message="An annotation file is not available for the build associated with the selected input file"/> | 158 <validator type="no_options" message="An annotation file is not available for the build associated with the selected input file"/> |
| 158 </param> | 159 </param> |
| 159 </when> | 160 </when> |
| 160 <when value="history"> | 161 <when value="history"> |