germline-DNA

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A BioWDL variantcalling pipeline for germline DNA data. Starting with FASTQ files to produce VCF files. Category:Multi-Sample

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# germline-DNA
This repository contains the [Biowdl](https://github.com/biowdl) workflow
usable for processing germline-DNA data. Starting with FASTQ
files and resulting in VCF files. Can switch between joint genotyping
and single sample calling modes. It can also call the X and Y chromosomes
with the correct ploidy if given BED files for the non-PAR regions.

## Documentation
Documentation for this workflow can be
found [here](https://biowdl.github.io/germline-DNA/).

## About
This workflow is part of [Biowdl](https://github.com/biowdl) developed by the
SASC team at [Leiden University Medical Center](https://www.lumc.nl/).

## Contact
<p>
  
For any question related to germline-DNA, please use the
<a href="https://github.com/biowdl/germline-DNA/issues">github issue tracker</a>
or contact the SASC team directly at: 
<a href="&#109;&#97;&#105;&#108;&#116;&#111;&#58;&#115;&#97;&#115;&#99;&#64;&#108;&#117;&#109;&#99;&#46;&#110;&#108;">
&#115;&#97;&#115;&#99;&#64;&#108;&#117;&#109;&#99;&#46;&#110;&#108;</a>.
</p>

germline-DNA

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