Mercurial > repos > kyost > atac_primer_tool
comparison make_window_bed.xml @ 0:fd3ea97a96bc draft
planemo upload commit 103cb51ec368438642504c3f98b76c363db478bb
| author | kyost |
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| date | Sat, 28 Apr 2018 15:07:26 -0400 |
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| children |
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| -1:000000000000 | 0:fd3ea97a96bc |
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| 1 <tool id="make_window_bed" name="Create bed file of qPCR windows" version="0.1.0"> | |
| 2 <description> Creates bed file of windows spanning peaks of interest.</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="3.4.2">r-base</requirement> | |
| 5 </requirements> | |
| 6 <command><![CDATA[ | |
| 7 Rscript --vanilla $__tool_directory__/make_window_bed.R $input1 $input2 $output | |
| 8 ]]></command> | |
| 9 <inputs> | |
| 10 <param type="data" name="input1" format="bed" label="Peak Bed File"/> | |
| 11 <param type="integer" name="input2" value="100" label="Window Size"/> | |
| 12 </inputs> | |
| 13 <outputs> | |
| 14 <data name="output" format="bed" label="qPCR Window Bed File"/> | |
| 15 </outputs> | |
| 16 <tests> | |
| 17 <test> | |
| 18 <param name="input1" value="RAMA_peaks.bed"/> | |
| 19 <param name="input2" value="100"/> | |
| 20 <output name="output" file="qPCR_windows.bed"/> | |
| 21 </test> | |
| 22 </tests> | |
| 23 <help><![CDATA[ | |
| 24 Generates bed file containing overlapping windows of specified size spanning peaks in input bed file. | |
| 25 ]]></help> | |
| 26 <citations> | |
| 27 <citation type="doi">doi:10.1038/nmeth.4663</citation> | |
| 28 </citations> | |
| 29 </tool> |