cran / sequenzaLinks
This is a read-only mirror of the CRAN R package repository. sequenza — Copy Number Estimation from Tumor Genome Sequencing Data. Homepage: https://sequenzatools.bitbucket.io, Mailing list: https://groups.google.com/forum/#!forum/sequenza-user-group Report bugs for this package: https://bitbucket.org/sequenzatools/sequenza/issues
☆20Updated 6 years ago
Alternatives and similar repositories for sequenza
Users that are interested in sequenza are comparing it to the libraries listed below
Sorting:
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆31Updated 2 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- ☆13Updated 8 years ago
- ☆38Updated 4 years ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆34Updated 2 months ago
- CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…☆20Updated 5 years ago
- An R package to time somatic mutations☆65Updated 4 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
- Advanced plotting functions for CNV data generated by CNV-Seq and Control Freec☆13Updated 5 years ago
- Utility functions for FACETS☆39Updated last month
- ☆21Updated last week
- A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…☆32Updated 4 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72Updated last year
- Define regions in the genome☆33Updated 3 years ago
- ☆31Updated last year
- RNA editing tests☆17Updated 5 years ago
- An R package for predicting HR deficiency from mutation contexts☆30Updated 9 months ago
- CNV analysis workflow code for the manuscript☆13Updated 5 years ago
- Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.☆41Updated 4 years ago
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14Updated 6 years ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Updated 6 years ago
- tools to find circRNAs in RNA-seq data☆44Updated 8 years ago
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆22Updated 5 years ago
- Fork of the Polysolver project☆33Updated 6 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- Clonality inference in multiple tumor samples using phylogeny☆13Updated 8 years ago
- Example datasets for CNVkit (http://github.com/etal/cnvkit)☆23Updated 7 years ago
- HiC for copy Number variation and Translocation detection☆40Updated 4 years ago
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆15Updated 10 years ago