broadinstitute / gatk-protected
Obsolete/Legacy GATK repository -- go to https://github.com/broadinstitute/gatk instead
☆33Updated 7 years ago
Alternatives and similar repositories for gatk-protected:
Users that are interested in gatk-protected are comparing it to the libraries listed below
- Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline☆57Updated 5 years ago
- Tools for next-generation sequencing analysis☆88Updated 5 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆48Updated 5 years ago
- Assembly Based ReAligner☆72Updated 6 years ago
- Documenting usage and experience with bioinformatic tools☆41Updated 9 years ago
- A false-positive filter for variants called from massively parallel sequencing☆29Updated 7 years ago
- ☆78Updated 10 years ago
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆51Updated 7 years ago
- De novo assembly based variant calling pipeline for Illumina short reads☆108Updated 4 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- An awk-like VCF parser☆56Updated last year
- ☆68Updated 2 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆96Updated 2 years ago
- Visualization and annotation of CNVs from population-scale whole-genome sequencing data☆70Updated 7 years ago
- Tools for early stage alignment file processing☆93Updated 5 years ago
- Read visualizer for structural variants☆81Updated 6 years ago
- A tool to benchmark mappers and different parameters within minutes☆43Updated 5 years ago
- Fast spliced aligner with low memory requirements☆41Updated 9 years ago
- R package designed to simplify structural variant analysis☆72Updated 3 years ago
- Very simple, pure python, BAM file reader☆79Updated 6 years ago
- Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad production by https://gi…☆55Updated 4 years ago
- Galaxy RNA workbench☆39Updated 4 years ago
- This project is deprecated, please see strelka2 at https://github.com/Illumina/strelka☆38Updated 7 years ago
- A method to identify structural variation from sequencing data in target regions☆31Updated 4 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 8 years ago
- CWL tools and workflows for GGR☆21Updated 3 years ago
- Quality of RNA-Seq Toolset☆52Updated 5 years ago
- A software for calculating telomere length☆68Updated 6 years ago
- DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools☆61Updated 5 years ago
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 6 years ago