rhshah / IMPACT-PipelineLinks
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
☆57Updated 4 years ago
Alternatives and similar repositories for IMPACT-Pipeline
Users that are interested in IMPACT-Pipeline are comparing it to the libraries listed below
Sorting:
- ☆69Updated 3 years ago
- ☆43Updated last year
- identifying mutational significance in cancer genomes☆62Updated 3 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆100Updated 4 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆99Updated 3 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- Documenting usage and experience with bioinformatic tools☆40Updated 10 years ago
- ☆57Updated 5 years ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆78Updated 5 years ago
- Characterization of Germline variants☆99Updated 3 years ago
- A simplified pipeline for ctDNA sequencing data analysis☆37Updated 8 years ago
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆55Updated 5 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆21Updated 3 years ago
- Exome/Capture/RNASeq Pipeline Implementation using snakemake☆47Updated 7 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆72Updated 5 years ago
- Tumor Mutational Burden☆63Updated 5 months ago
- Reference data: BED files, genes, transcripts, variations.☆88Updated 8 years ago
- ☆54Updated 3 years ago
- Relevant papers for CNV and SV approaches☆94Updated last year
- Collection of CGAT NGS Pipelines☆43Updated 7 years ago
- ☆46Updated 6 years ago
- Microsatellite Analysis for Normal-Tumor InStability☆75Updated 3 years ago
- BIC@MSKCC Variants Pipeline☆23Updated 2 years ago
- ClassifyCNV: a tool for clinical annotation of copy-number variants☆69Updated 2 years ago
- DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools☆61Updated 6 years ago
- Software program for checking sample matching for NGS data☆137Updated last year
- Create "haplotype maps" of variants in order to use with Picardtools Crosscheck_Files utility, which allows for robust genotyping of func…☆28Updated 2 years ago
- Concordance and contamination estimator for tumor–normal pairs☆59Updated last year
- DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies …☆37Updated 3 years ago
- Battenberg R package for subclonal copynumber estimation☆94Updated last month