pedricolino/cnakepit

A Snakemake pipeline for copy number variant calling without normal tissue samples

Language: Python - Size: 3.31 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 0 - Forks: 0

tdayris/fair_gatk_mutect2

Snakemake workflow used to call germline and/or somatic variants with GATK Mutect2

Language: Python - Size: 178 KB - Last synced at: about 1 month ago - Pushed at: 2 months ago - Stars: 1 - Forks: 1

databricks/genomics-pipelines

secondary analysis pipelines parallelized with apache spark

Language: Scala - Size: 14 MB - Last synced at: 2 days ago - Pushed at: about 3 years ago - Stars: 16 - Forks: 12

renatopuga/somatico

GATK 4 Mutect2 Somático

Language: Shell - Size: 5.28 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 7 - Forks: 29

TRON-Bioinformatics/tronflow-mutect2

Nextflow pipeline for Mutect2 somatic variant calling best practices

Language: Nextflow - Size: 21.9 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 19 - Forks: 3

asw0049/phdscripts

This repository will house the scripts used to analyze and represent genomic and temperature data for my dissertation.

Language: Shell - Size: 13.7 KB - Last synced at: over 1 year ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0

gustaveroussy/wes-snp-bwa-mutect2-annovar

Reference pipeline for somatic SNP detection using BWA for mapping, Mutect2 for calling and Annovar for annotation

Size: 14.6 KB - Last synced at: over 1 year ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 0

SherineAwad/SomaticMutations

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

Language: Python - Size: 34.2 KB - Last synced at: over 1 year ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 1

nickveltmaat/SNVcaller

Pipeline to call SNV's with 4 tools (VarDict, LoFreq, Mutect2 & SiNVICT)

Language: Python - Size: 193 KB - Last synced at: 2 months ago - Pushed at: over 2 years ago - Stars: 3 - Forks: 1

stevekm/MuTect2_target_chunking

demo pipeline for testing different data chunking methods for MuTect2

Language: Nextflow - Size: 158 KB - Last synced at: 2 months ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0

RRafiee/MuTect1

Language: R - Size: 2.3 MB - Last synced at: over 1 year ago - Pushed at: about 8 years ago - Stars: 0 - Forks: 0