broadinstitute / oncotatorLinks
☆69Updated 3 years ago
Alternatives and similar repositories for oncotator
Users that are interested in oncotator are comparing it to the libraries listed below
Sorting:
- DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools☆61Updated 6 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆98Updated 3 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay☆57Updated 4 years ago
- Documenting usage and experience with bioinformatic tools☆40Updated 10 years ago
- identifying mutational significance in cancer genomes☆61Updated 2 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆51Updated 3 years ago
- BIC@MSKCC Variants Pipeline☆25Updated 2 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆49Updated 6 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 5 years ago
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆54Updated 8 years ago
- ☆57Updated 5 years ago
- ☆43Updated last year
- ☆78Updated 11 years ago
- R package for inferring copy number from read depth☆32Updated 3 years ago
- Characterization of Germline variants☆98Updated 3 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 4 years ago
- Battenberg algorithm and associated implementation script☆53Updated 4 years ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆77Updated 5 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 9 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- Microsatellite Analysis for Normal-Tumor InStability☆74Updated 3 years ago
- QDNAseq package for Bioconductor☆52Updated last year
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆55Updated 4 years ago
- ☆46Updated 5 years ago
- 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
- Exome/Capture/RNASeq Pipeline Implementation using snakemake☆47Updated 7 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆72Updated 4 years ago
- Concordance and contamination estimator for tumor–normal pairs☆58Updated 11 months 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