Mercurial > repos > bgruening > bedtools_test_bag

<tool id="bedtools_bed12tobed6" name="Convert from BED12 to BED6" version="0.1.0">
    <description></description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements" />
    <expand macro="stdio" />
    <command>
        bed12ToBed16
        -i '$input'
        &gt; '$output'

    </command>
    <inputs>
        <param format="bed" name="input" type="data" label="Convert the following BED12 file to BED6"/>
    </inputs>
    <outputs>
        <data format="bed" name="output" metadata_source="input" label="${input.name} (as BED6)"/>
    </outputs>
    <help>

**What it does**

bed12ToBed6 is a convenience tool that converts BED features in BED12 (a.k.a. “blocked” BED features such as genes) to discrete BED6 features. For example, in the case of a gene with six exons, bed12ToBed6 would create six separate BED6 features (i.e., one for each exon).

@REFERENCES@
    </help>
</tool>
author	bernhardlutz
date	Wed, 18 Jun 2014 15:07:04 -0400
parents	75d323631dce
children	c782e0edc4f1