Mercurial > repos > iuc > data_manager_star_index_builder

view data_manager/macros.xml @ 4:e17bb3d69770 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_star_index_builder commit 4888c06bc87c2b236fae379c4220a23aae036cd6
author iuc
date Mon, 15 Jan 2018 15:39:06 -0500
parents c5f5ec715548
children 1bd6dc820044
line wrap: on
line source

<macros>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="2.5.2b">star</requirement>
            <requirement type="package" version="0.1.19">samtools</requirement>
        </requirements>
    </xml>
    <token name="@FASTQ_GZ_OPTION@">
        --readFilesCommand zcat
    </token>
    <xml name="citations">
        <citations>
            <citation type="doi">10.1093/bioinformatics/bts635</citation>
        </citations>
    </xml>
    <xml name="@SJDBOPTIONS@">
         <param argument="--sjdbGTFfile" type="data" format="gff3,gtf" label="Gene model (gff3,gtf) file for splice junctions" optional="true" help="Exon junction information for mapping splices"/>
         <param argument="--sjdbOverhang" type="integer" min="1" value="100" label="Length of the genomic sequence around annotated junctions" help="Used in constructing the splice junctions database. Ideal value is ReadLength-1"/>
    </xml>
</macros>