gatk4 开源项目推荐（49 个）

nf-core /sarek

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

nf-core /rnavar

gatk4 RNA variant calling pipeline

gencorefacility /variant-calling-pipeline-gatk4

使用 GATK4 和 Nextflow 的变异检测流程

digo4 /Clinical-Genomics

这里我们将讨论使用 GATK 最佳实践流程对人类数据集进行变异检测。

ESR-NZ /human_genomics_pipeline

A Snakemake workflow to process single samples or cohorts of Illumina paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

biowdl /RNA-seq

A BioWDL pipeline for processing RNA-seq data, starting with FASTQ files to produce expression measures and VCFs. Category:Multi-Sample

biowdl /germline-DNA

该项目在 GitHub 上没有填写描述

Sentieon /sentieon-dnaseq

Sentieon DNAseq

nickhir /GermlineMutationCalling

An adaptable Snakemake workflow which uses GATKs best practice recommendations to perform germline mutation calling starting with BAM files

Vicellken /Whole_exome_sequence

该项目在 GitHub 上没有填写描述

renatopuga /somatico

GATK 4 Mutect2 Somático

genome-spy /segment-model-spy

An interactive visualization tool for GATK CNV analysis. Displays modeled segments and raw read/allele counts.

kevin-wamae /snakemake-illumina-gatkvariant

A Snakemake workflow for variant calling using GATK4 best practices

SherineAwad /gatkVariantCalling

Snakemake pipeline for variant calling using GATK

khandaud15 /RNA-Seq-Variant-Calling

Snakemake based workflow for calling Variants on RNA-Seq data in a joint calling mode

x-zang /tutorial-gatk4-rnaseq-germline-snps-indels

Beginner's tutorial for GATK4 workflow on variant calling from RNA-seq.

SherineAwad /SomaticMutations

This a snakemake pipeline to detect Somatic mutations (GATK4 and Mutect2)

jvandinter /MitoCallPipeline

A pipeline for mitochondrial mutation calling

thalitacamelo /wsl2_docker_gatk

Steps that I followed setting up Windows Subsystem for Linux 2 (WSL2) and Docker to run NGS data analysis using GATK.

elixir-no-nels /Selma

Germline Variant Calling Pipeline built in Snakemake