gatk-workflows / gatk4-data-processingLinks
Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools
☆158Updated 3 years ago
Alternatives and similar repositories for gatk4-data-processing
Users that are interested in gatk4-data-processing are comparing it to the libraries listed below
Sorting:
- Workflows for germline short variant discovery with GATK4☆138Updated 4 years ago
- Count bases in BAM/CRAM files☆318Updated 3 years ago
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆163Updated 2 years ago
- A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline☆197Updated 2 years ago
- A structural variation pipeline for short-read sequencing☆193Updated this week
- Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls☆205Updated 4 years ago
- VarDict☆198Updated last year
- An ensemble approach to accurately detect somatic mutations using SomaticSeq☆199Updated 2 months ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆277Updated 5 months ago
- This Snakemake pipeline implements the GATK best-practices workflow☆260Updated 2 years ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆326Updated 4 months ago
- Annotation and Ranking of Structural Variation☆263Updated 2 weeks ago
- Documentation for the ANNOVAR software☆245Updated 2 months ago
- Fast and accurate gene fusion detection from RNA-Seq data☆247Updated last month
- ☆293Updated last month
- Various algorithms for analysing genomics data☆246Updated last week
- tools for adding mutations to existing .bam files, used for testing mutation callers☆246Updated last year
- Precision HLA typing from next-generation sequencing data☆205Updated last year
- Structural variation and indel detection by local assembly☆248Updated last month
- a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads☆228Updated 3 years ago
- The nimble & robust variant annotator☆185Updated last year
- A tool for estimating repeat sizes☆198Updated last year
- STAR-Fusion codebase☆245Updated 3 weeks ago
- GATK RNA-Seq Variant Calling in Nextflow☆136Updated 2 years ago
- Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel☆178Updated this week
- Gene fusion detection and visualization☆128Updated 3 years ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆212Updated 5 years ago
- Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.☆190Updated last year
- basic walk-throughs for alignment and variant calling from NGS sequencing data☆217Updated 9 months ago
- A tool set for short variant discovery in genetic sequence data.☆202Updated 4 years ago