amcpherson / citupLinks
Clonality inference in multiple tumor samples using phylogeny
☆13Updated 8 years ago
Alternatives and similar repositories for citup
Users that are interested in citup are comparing it to the libraries listed below
Sorting:
- ☆13Updated 8 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Updated 2 years ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆35Updated 4 months ago
- ☆19Updated 7 years ago
- ☆36Updated 6 years ago
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14Updated 6 years ago
- An R package to time somatic mutations☆65Updated 5 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- Fork of the Polysolver project☆33Updated 6 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72Updated last year
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆18Updated 5 years ago
- All-FIT - Allele-Frequency-based Imputation of Tumor Purity☆18Updated 6 years ago
- ☆39Updated 4 years ago
- A comprehensive toolkit for mutational signature analysis☆41Updated last year
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆35Updated last year
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆15Updated 10 years ago
- An R package for predicting HR deficiency from mutation contexts☆30Updated 11 months ago
- ☆26Updated last year
- Define regions in the genome☆33Updated 3 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆53Updated 3 years ago
- HiC for copy Number variation and Translocation detection☆40Updated 4 years ago
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆22Updated last year
- Utility functions for FACETS☆39Updated 2 months ago
- This is a read-only mirror of the CRAN R package repository. sequenza — Copy Number Estimation from Tumor Genome Sequencing Data. Homep…☆20Updated 6 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆31Updated 9 months ago
- A tool for sample swap identification in high throughput sequencing studies