broadgsa / gatkLinks
Official code repository for GATK versions 1.0 through 3.7 (core engine). For GATK 4 code, see the https://github.com/broadinstitute/gatk repository
☆299Updated 7 years ago
Alternatives and similar repositories for gatk
Users that are interested in gatk are comparing it to the libraries listed below
Sorting:
- Official code repository for GATK versions 1.0 through 3.7 (full licensed package). For GATK 4 code, see the https://github.com/broadinst…☆145Updated 7 years ago
- C++ API & command-line toolkit for working with BAM data☆429Updated 8 months ago
- Count bases in BAM/CRAM files☆322Updated 3 years ago
- Java utilities for Bioinformatics☆515Updated last month
- Haplotype VCF comparison tools☆455Updated 2 years ago
- a lightweight db framework for exploring genetic variation.☆323Updated 5 years ago
- A flexible framework for rapid genome analysis and interpretation☆318Updated 3 years ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆331Updated 7 months ago
- Tools for working with genomic and high throughput sequencing data.☆350Updated last week
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆500Updated 2 months ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆394Updated 4 months ago
- Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools☆160Updated 3 years ago
- ☆299Updated last month
- de novo sequence assembler using string graphs☆243Updated 6 years ago
- A Java API for high-throughput sequencing data (HTS) formats.☆293Updated last week
- Reads simulator☆283Updated 4 years ago
- Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data☆297Updated 4 months ago
- ☆320Updated 5 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆336Updated 3 years ago
- A tool set for short variant discovery in genetic sequence data.☆204Updated 4 years ago
- web-based analysis tool for rare disease genomics☆198Updated this week
- BEDOPS: high-performance genomic feature operations☆357Updated 8 months ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆280Updated 8 months ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆212Updated 5 years ago
- A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline☆205Updated 2 years ago
- This repository contains data indexes from NIST's Genome in a Bottle project.☆262Updated 2 years ago
- HGVS variant name parsing and generation☆176Updated 2 years ago
- VarDict☆201Updated 2 years ago
- Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls☆208Updated 4 years ago
- Strelka2 germline and somatic small variant caller☆389Updated 4 years ago