Mercurial > repos > iuc > bedtools
annotate complementBed.xml @ 28:f0aca67fdb71 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 391d2d41095edb2badf70924d3636238453ee377
| author | iuc |
|---|---|
| date | Mon, 23 Jan 2017 06:42:52 -0500 |
| parents | a2d4c30ba2f9 |
| children | b0d5e752c0c5 |
| rev | line source |
|---|---|
| 8 | 1 <tool id="bedtools_complementbed" name="ComplementBed" version="@WRAPPER_VERSION@.0"> |
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a2d4c30ba2f9
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 0887009a23d176b21536c9fd8a18c4fecc417d4f
iuc
parents:
8
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changeset
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2 <description>Extract intervals not represented by an interval file</description> |
| 8 | 3 <macros> |
| 4 <import>macros.xml</import> | |
| 5 </macros> | |
| 6 <expand macro="requirements" /> | |
| 7 <expand macro="stdio" /> | |
| 8 <command> | |
| 9 <![CDATA[ | |
| 10 complementBed | |
| 11 -i "$input" | |
| 12 -g "$genome" | |
| 13 > "$output" | |
| 14 ]]> | |
| 15 </command> | |
| 16 <inputs> | |
| 17 <param format="bed,vcf,gff,gff3" name="input" type="data" label="BED/VCF/GFF file"/> | |
| 18 <expand macro="genome" /> | |
| 19 </inputs> | |
| 20 <outputs> | |
| 21 <data format_source="input" name="output" metadata_source="input" label="Complemen of ${input.name}"/> | |
| 22 </outputs> | |
| 23 <tests> | |
| 24 <test> | |
| 25 <param name="input" value="a.bed" ftype="bed" /> | |
| 26 <param name="genome" value="mm9_chr1.len" /> | |
| 27 <output name="output" file="complementBed_result1.bed" ftype="bed" /> | |
| 28 </test> | |
| 29 </tests> | |
| 30 <help> | |
| 31 <![CDATA[ | |
| 32 **What it does** | |
| 33 | |
| 34 bedtools complement returns all intervals in a genome that are not covered by at least one interval in the input BED/GFF/VCF file. | |
| 35 | |
| 36 .. image:: $PATH_TO_IMAGES/complement-glyph.png | |
| 37 | |
| 38 @REFERENCES@ | |
| 39 ]]> | |
| 40 </help> | |
| 41 <expand macro="citations" /> | |
| 42 </tool> |