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Official code repository for GATK versions 4 and up

Learning_vcf_file ⭐ 122

Learning the Variant Call Format

Genomicsdb ⭐ 88

High performance data storage for importing, querying and transforming variants.

Callings Nf ⭐ 76

GATK RNA-Seq Variant Calling in Nextflow

Gatk4 Somatic Snvs Indels ⭐ 54

This repo will be archived soon, these workflows will be housed in the GATK repository under the scripts directory. These workflows are also organized in Dockstore in the GATK Best Practices Workflows collection.

Teamteri ⭐ 50

Genomics (computational bioinformatic data analysis) running on GCP, AWS or Azure

Ngs_pipeline ⭐ 31

Exome/Capture/RNASeq Pipeline Implementation using snakemake

Ngs Variants Training ⭐ 22

GitHub for the SIB courses NGS - Genome variant analysis

Alignment Nf ⭐ 18

Whole Exome/Whole Genome Sequencing alignment pipeline

Sentieon Dnaseq ⭐ 15

Sentieon DNAseq

Gatk Flow ⭐ 10

Nextflow implementation of the GATK HaplotypeCaller pipeline

Reusable and maintained Luigi tasks to incorporate in bioinformatics pipelines

Gatk Cwl Generator ⭐ 6

Generates CWL files from the GATK documentation

Genotype Collector And Snp Dataset Creator ⭐ 5

Collecting Genotypes from ENA and make their SNPs

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