comparison genomeCoverageBed_bedgraph.xml @ 12:c782e0edc4f1 draft default tip

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11:e526617a6bb9

<tool id="bedtools_genomecoveragebed_bedgraph" name="Create a BedGraph of genome coverage" version="0.2.0">
    <description>
    </description>
    <macros>
        <import>macros.xml</import>
    </macros>

        <param name="scale" type="float" optional="true" label="Scale the coverage by a constant factor" help="Each BEDGRAPH coverage value is multiplied by this factor before being reported. Useful for normalizing coverage by, e.g., reads per million (RPM)"/>
    </inputs>
    <outputs>
        <data format="bedgraph" name="output"  metadata_source="input" label="${input.name} (Genome Coverage BedGraph)" />
    </outputs>

$ cat A.bed
chr1  10  20
chr1  20  30
chr2  0   500

$ cat my.genome
chr1  1000
chr2  500

$ bedtools genomecov -i A.bed -g my.genome
chr1   0  980  1000  0.98
chr1   1  20   1000  0.02
chr2   1  500  500   1
genome 0  980  1500  0.653333
genome 1  520  1500  0.346667

    <help>


**What it does**

12:c782e0edc4f1

<tool id="bedtools_genomecoveragebed_bedgraph" name="Create a BedGraph of genome coverage" version="@WRAPPER_VERSION@.0">
    <description>
    </description>
    <macros>
        <import>macros.xml</import>
    </macros>

        <param name="scale" type="float" optional="true" label="Scale the coverage by a constant factor" help="Each BEDGRAPH coverage value is multiplied by this factor before being reported. Useful for normalizing coverage by, e.g., reads per million (RPM)"/>
    </inputs>
    <outputs>
        <data format="bedgraph" name="output"  metadata_source="input" label="${input.name} (Genome Coverage BedGraph)" />
    </outputs>
    <help>


**What it does**