Mercurial > repos > devteam > samtools_split
comparison samtools_split.xml @ 6:818030fa6bbf draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/samtools/samtools_split commit 9c5a35ce695c3d134e41d8695487edd5f71ea33c
author | iuc |
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date | Sun, 08 Sep 2024 03:26:49 +0000 |
parents | bd850490c7f1 |
children |
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5:bd850490c7f1 | 6:818030fa6bbf |
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6 <expand macro="requirements"/> | 6 <expand macro="requirements"/> |
7 <expand macro="stdio"/> | 7 <expand macro="stdio"/> |
8 <expand macro="version_command"/> | 8 <expand macro="version_command"/> |
9 <command><![CDATA[ | 9 <command><![CDATA[ |
10 @ADDTHREADS@ | 10 @ADDTHREADS@ |
11 samtools split -f 'Read_Group_%!.bam' | 11 samtools split -f 'Read_Group_%!.bam' --output-fmt 'bam' |
12 #if $header: | 12 #if $header: |
13 -u '${output}:${header}' | 13 -h $header' |
14 #else: | |
15 -u '${output}' | |
16 #end if | 14 #end if |
15 -u '$output' | |
17 -@ \$addthreads | 16 -@ \$addthreads |
18 '$input_bam' | 17 '$input_bam' |
19 ]]></command> | 18 ]]></command> |
20 <inputs> | 19 <inputs> |
21 <param name="input_bam" type="data" format="bam" label="BAM file" /> | 20 <param name="input_bam" type="data" format="bam" label="BAM file" /> |
39 <help><![CDATA[ | 38 <help><![CDATA[ |
40 **What it does** | 39 **What it does** |
41 | 40 |
42 Splits BAM files on readgroups. | 41 Splits BAM files on readgroups. |
43 | 42 |
44 This tool is based on ``samtools split`` command. It will generate multiple output datasets for each redagroup from the input dataset. | 43 This tool is based on ``samtools split`` command. It will generate multiple output datasets for each readgroup from the input dataset. |
45 ]]></help> | 44 ]]></help> |
46 <expand macro="citations"/> | 45 <expand macro="citations"/> |
47 </tool> | 46 </tool> |