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comparison getfastaBed.xml @ 61:9f6bd4c9479f draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit db0b91a784ca0c216345bc488d7d488babf1b53f"
author iuc
date Fri, 01 Apr 2022 19:00:48 +0000
parents 36d57dc82aa6
children f6c88d2e9ae5
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60:36d57dc82aa6 61:9f6bd4c9479f
89 <param name="tab" value="False" /> 89 <param name="tab" value="False" />
90 <param name="split" value="False" /> 90 <param name="split" value="False" />
91 <param name="nameOnly" value="True" /> 91 <param name="nameOnly" value="True" />
92 <output name="output" file="getfastaBed_result4.bed" ftype="fasta" /> 92 <output name="output" file="getfastaBed_result4.bed" ftype="fasta" />
93 </test> 93 </test>
94 <test>
95 <param name="input" value="nucBed2.bed" ftype="bed" />
96 <param name="fasta_source_selector" value="preloaded"/>
97 <param name="fasta_id" value="testid" />
98 <param name="tab" value="False" />
99 <param name="split" value="False" />
100 <param name="nameOnly" value="True" />
101 <output name="output" file="getfastaBed_result4.bed" ftype="fasta" />
102 </test>
94 </tests> 103 </tests>
95 <help><![CDATA[ 104 <help><![CDATA[
96 **What it does** 105 **What it does**
97 106
98 bedtools getfasta will extract the sequence defined by the coordinates in a BED interval and create a new FASTA entry in the output file for each extracted sequence. By default, the FASTA header for each extracted sequence will be formatted as follows: “>chrom>:&lt;start>-&lt;end>”. 107 bedtools getfasta will extract the sequence defined by the coordinates in a BED interval and create a new FASTA entry in the output file for each extracted sequence. By default, the FASTA header for each extracted sequence will be formatted as follows: “>chrom>:&lt;start>-&lt;end>”.