Illumina / canvas
Canvas - Copy number variant (CNV) calling from DNA sequencing data
☆123Updated 5 years ago
Alternatives and similar repositories for canvas:
Users that are interested in canvas are comparing it to the libraries listed below
- Tumor Heterogeneity Analysis (THetA) and THetA2 are algorithms that estimate the tumor purity and clonal/subclonal copy number aberration…☆71Updated 3 years ago
- Microassembly based somatic variant caller for NGS data☆154Updated 2 years ago
- Battenberg algorithm and associated implementation script☆52Updated 4 years ago
- Quality of RNA-Seq Toolset☆52Updated 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
- Application for inferring subclonal composition and evolution from whole-genome sequencing data.☆108Updated 2 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆96Updated 3 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆69Updated 4 years ago
- Tools for early stage alignment file processing☆93Updated 5 years ago
- DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools☆61Updated 5 years ago
- Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data☆87Updated 4 years ago
- Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps☆124Updated 6 years ago
- An awk-like VCF parser☆55Updated last year
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆51Updated 7 years ago
- Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay☆55Updated 3 years ago
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆76Updated 4 years ago
- An R package for inferring the subclonal architecture of tumors☆117Updated last year
- A false-positive filter for variants called from massively parallel sequencing☆29Updated 7 years ago
- ☆68Updated 2 years ago
- identifying mutational significance in cancer genomes☆60Updated 2 years ago
- Characterization of Germline variants☆98Updated 2 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆96Updated 2 years ago
- xHLA: Fast and accurate HLA typing from short read sequence data☆107Updated last year
- ☆78Updated 10 years ago
- Annotate models of genetic inheritance patterns in variant files (vcf files)☆78Updated last month
- Relevant papers for CNV and SV approaches☆94Updated 2 months ago
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆51Updated 4 years ago
- phasing and Allele Specific Expression from RNA-seq☆110Updated 6 months ago
- Somatic copy variant caller (CNV) for next generation sequencing☆70Updated 4 months ago
- R package for bcbio RNA-seq analysis.☆58Updated 4 months ago