UMCUGenetics / CHORD
An R package for predicting HR deficiency from mutation contexts
☆27Updated last year
Alternatives and similar repositories for CHORD:
Users that are interested in CHORD are comparing it to the libraries listed below
- ☆13Updated 7 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated 3 months ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆33Updated 6 months ago
- Main repository for Drews et al. (Nature, 2022)☆39Updated last year
- ☆34Updated 5 years ago
- Rocking R at UMCCR☆9Updated 4 years ago
- ☆37Updated 4 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆30Updated last year
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆43Updated 2 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆70Updated 8 months ago
- Utility functions for FACETS☆34Updated 10 months ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆28Updated 5 years ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆26Updated 5 months ago
- GLASS consortium☆38Updated 4 years ago
- Filtering of PDX samples for mouse derived reads☆26Updated 2 years ago
- 📊Evaluating, filtering, comparing, and visualising VCF☆27Updated last year
- RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.☆26Updated 2 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis☆21Updated last year
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆34Updated 2 months ago
- MutSig2CV from Lawrence et al. 2014☆30Updated 4 years ago
- An R package to time somatic mutations☆60Updated 4 years ago
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆20Updated 8 months ago
- RNA editing tests☆16Updated 4 years ago
- MAnorm2 for Normalizing and Comparing ChIP-seq Samples☆32Updated 2 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆37Updated 2 years ago
- Codes and Data for FFPEsig manuscript☆15Updated last year
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 6 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆54Updated 2 weeks ago