#
gatk4
Here are 24 public repositories matching this topic...
A BioWDL variantcalling pipeline for germline DNA data. Starting with FASTQ files to produce VCF files. Category:Multi-Sample
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Apr 28, 2021 - wdl
Sentieon DNAseq
acceleration
gatk
bioinformatics-pipeline
variant-calling
dnaseq
bwa-mem
dna-sequencing
sentieon
gatk4
genomics-data
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Dec 30, 2020 - Shell
A BioWDL pipeline for processing RNA-seq data, starting with FASTQ files to produce expression measures and VCFs. Category:Multi-Sample
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Apr 13, 2021 - wdl
A Snakemake workflow to process single samples or cohorts of paired-end sequencing data (WGS or WES) using bwa/GATK4.
pipeline
genomics
exome-pipeline
illumina
nvidia-gpu
cohort-analysis
gatk4
snakemake-pipeline
gatk-bestpractices
nvidia-clara-parabricks
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Nov 12, 2020 - Python
Germline Variant Calling Pipeline built in Snakemake
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Feb 18, 2020 - Shell
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Aug 29, 2019 - Shell
A pipeline for mitochondrial mutation calling
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Jun 19, 2020 - HTML
Small GATK alignment and variant calling pipeline using python
pipeline
genomics
parallel
vcf
python-wrapper
alignment
population
population-genomics
variant-calling
bwa
bwa-mem
gatk4
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Jan 20, 2021 - Python
Pipeline for calling and analyzing variants from RNA-Seq data
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Aug 26, 2020 - Python
Variantes genéticas de amostras de Rattus norvegicus utilizando GATK4
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Feb 24, 2021 - HTML
School project for the Computational Genomics (2018/2019) course, which is a part of the Master studies at the School of Electrical Engineering, University of Belgrade.
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Aug 7, 2020 - Common Workflow Language
Map and post-process your bams for SNP calling
reproducible-research
bioinformatics-pipeline
multiqc
bwa
whole-exome-sequencing
snakemake-workflows
fastqc
gatk4
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Mar 10, 2021 - Python
A pipeline that calls variants on a group of BAM files. Category:Multi-Sample
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Dec 11, 2020 - wdl
Beginner's tutorial for GATK4 workflow on variant calling from RNA-seq.
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Feb 25, 2021
The snakyVC is a pipeline built for variant calling using next-generation sequencing (NGS) whole-genome sequencing datasets.
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Apr 2, 2021 - Python
snakemake pipeline for gatk running on binder
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May 22, 2019 - HTML
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It would be nice to add a params to choose the VEP genome assembly.
In most cases it is the
--genomeparams, but I'm assuming it'll be easier to control if we have that as a separate params.For example, it's currently not working with the
--genome customsetting.