id: 'software_versions'
section_name: 'nf-core/sarek software versions'
section_href: 'https://github.com/nf-core/sarek'
plot_type: 'html'
description: 'are collected at run time from the software output.'
data: |
    <dl class="dl-horizontal">

        <dt>nf-core/sarek</dt><dd><samp>v2.7.1</samp></dd>
        <dt>Nextflow</dt><dd><samp>v21.04.1</samp></dd>
        <dt>BWA</dt><dd><samp><span style="color:#999999;">N/A</span></samp></dd>
        <dt>GATK</dt><dd><samp>v4.1.7.0</samp></dd>
        <dt>FreeBayes</dt><dd><samp>v1.3.2</samp></dd>
        <dt>samtools</dt><dd><samp>v1.9</samp></dd>
        <dt>Strelka</dt><dd><samp>v2.9.10</samp></dd>
        <dt>Manta</dt><dd><samp>v1.6.0</samp></dd>
        <dt>TIDDIT</dt><dd><samp>v2.7.1</samp></dd>
        <dt>AlleleCount</dt><dd><samp>v4.0.2</samp></dd>
        <dt>ASCAT</dt><dd><samp>v2.5.2</samp></dd>
        <dt>Control-FREEC</dt><dd><samp>vv11.6</samp></dd>
        <dt>msisensor</dt><dd><samp>v0.5</samp></dd>
        <dt>SnpEff</dt><dd><samp>v4.3t</samp></dd>
        <dt>VEP</dt><dd><samp>v99.2</samp></dd>
        <dt>MultiQC</dt><dd><samp>v1.8</samp></dd>
        <dt>FastQC</dt><dd><samp>v0.11.9</samp></dd>
        <dt>bcftools</dt><dd><samp>v1.9</samp></dd>
        <dt>CNVkit</dt><dd><samp>v0.9.6</samp></dd>
        <dt>htslib</dt><dd><samp>v1.9</samp></dd>
        <dt>QualiMap</dt><dd><samp>v2.2.2-dev</samp></dd>
        <dt>Trim Galore</dt><dd><samp>v0.6.4_dev</samp></dd>
        <dt>vcftools</dt><dd><samp>v0.1.16</samp></dd>
        <dt>R</dt><dd><samp>v4.0.2</samp></dd>
    </dl>