gatk4-haplotypecaller
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Here we are going to discuss variant calling on human datasets using GATK Best practices pipeline
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Jan 17, 2024 - Shell
Joint variant calling with GATK4 HaplotypeCaller, Google DeepVariant 1.0.0 and Strelka2, coordinated via Snakemake.
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May 1, 2024 - Python
A streamlined pipeline for germline variant calling on chromosome 11 using GATK. This repository includes workflows for data preprocessing, variant discovery, and annotation, with a focus on understanding genetic variations linked to disease-associated genes.
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Nov 26, 2024 - R
Optimized Python and C++ implementations of INDELseek, a Perl tool for detecting complex genetic indels in NGS data, with performance improvements, validation, and benchmarking against other variant callers.
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Nov 27, 2024 - C++
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