FunGeST / PalimpsestLinks
An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
☆72Updated last year
Alternatives and similar repositories for Palimpsest
Users that are interested in Palimpsest are comparing it to the libraries listed below
Sorting:
- An R package to time somatic mutations☆65Updated 5 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- ☆13Updated 8 years ago
- Mutational signature analysis for low statistics SNV data☆64Updated last year
- R package containing useful functions for mutational signature analysis☆87Updated this week
- Utility functions for FACETS☆39Updated 2 months ago
- ☆36Updated 6 years ago
- ☆72Updated 2 years ago
- ☆39Updated 4 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆98Updated 4 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆31Updated 9 months ago
- processes GoT amplicon data and generates a table of metrics☆32Updated 3 years ago
- An R package for predicting HR deficiency from mutation contexts☆30Updated 10 months ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Updated 6 years ago
- Filtering of PDX samples for mouse derived reads☆28Updated 3 years ago
- Battenberg R package for subclonal copynumber estimation☆93Updated 2 weeks ago
- Filters for false-positive mutation calls in NGS☆34Updated 6 years ago
- ☆44Updated 7 years ago
- ☆38Updated 5 years ago
- ☆82Updated 8 months ago
- Somatic copy variant caller (CNV) for next generation sequencing☆75Updated last year
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Updated 2 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆41Updated 3 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Updated 4 years ago
- 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…☆44Updated 3 years ago
- ☆17Updated 6 years ago
- GTEx analysis scripts☆20Updated 8 years ago
- A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications☆35Updated 3 years ago
- A toolkit for working with ATAC-seq data.☆24Updated last year