gatk-workflows / gatk4-germline-snps-indels
Workflows for germline short variant discovery with GATK4
☆133Updated 3 years ago
Alternatives and similar repositories for gatk4-germline-snps-indels:
Users that are interested in gatk4-germline-snps-indels are comparing it to the libraries listed below
- VarDict☆191Updated last year
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆155Updated last year
- Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools☆149Updated 2 years ago
- Script to automatically create and run IGV snapshot batchscripts☆139Updated 2 years ago
- SV detection from paired end reads mapping☆117Updated 5 years ago
- Annotation and Ranking of Structural Variation☆228Updated this week
- A structural variation pipeline for short-read sequencing☆175Updated this week
- ABRA2☆92Updated 2 years ago
- Gene fusion detection and visualization☆119Updated 2 years ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆154Updated 4 months ago
- This Snakemake pipeline implements the GATK best-practices workflow☆245Updated last year
- ☆82Updated 6 years ago
- Finder of Somatic Fusion Genes in RNA-seq data☆143Updated last year
- a lightweight bam file depth statistical tool☆148Updated 4 months ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆76Updated 4 years ago
- Whole Genome Simulator for Next-Generation Sequencing☆96Updated last month
- Software program for checking sample matching for NGS data☆126Updated 6 months ago
- ASCAT R package☆173Updated last month
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆200Updated 2 months ago
- A tool set for short variant discovery in genetic sequence data.☆194Updated 3 years ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆238Updated 3 months ago
- The DevNet project on github stores the PacBio DevNet website.☆116Updated 6 years ago
- Structural variation and indel detection by local assembly☆239Updated last month
- ☆109Updated 3 weeks ago
- Generate duplex/single consensus reads to reduce sequencing noises and remove duplications☆116Updated last year
- GWAS Pipeline for H3Africa☆108Updated last month
- Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls☆195Updated 3 years ago
- Discovering known and novel miRNAs from small RNA sequencing data☆141Updated 4 months ago
- Documentation archive for GATK tools and workflows☆84Updated 5 years ago
- VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.☆94Updated 7 months ago