mcmero / SVclone
A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.
☆41Updated 7 months ago
Alternatives and similar repositories for SVclone:
Users that are interested in SVclone are comparing it to the libraries listed below
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated 4 months ago
- Main repository for Drews et al. (Nature, 2022)☆39Updated last year
- An R package for predicting HR deficiency from mutation contexts☆28Updated last week
- Irons out wrinkles in noisy coverage data using robust PCA☆13Updated 5 months ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Updated 5 years ago
- Quantifying copy number signatures from absolute copy number profiles☆23Updated 3 weeks ago
- Model-based subclonal deconvolution from bulk sequencing.☆33Updated last month
- hands-on for NGS/SNParray CNV call trainning☆17Updated 2 years ago
- snakemake workflow for post-processing scATACseq data☆20Updated 4 years ago
- CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…☆19Updated 5 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆30Updated last year
- ☆13Updated 7 years ago
- A framework to infer mutational signatures in cancer over time☆53Updated 5 years ago
- ☆34Updated 5 years ago
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆16Updated 5 years ago
- DriverPower☆26Updated last month
- QDNAseq bin annotation for hg38☆14Updated 2 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆43Updated 3 years ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆33Updated 7 months ago
- Codes and Data for FFPEsig manuscript☆15Updated last year
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- Rocking R at UMCCR☆9Updated 4 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood☆10Updated 2 years ago
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆20Updated 9 months ago
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆13Updated 9 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…☆43Updated 2 years ago
- A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…☆31Updated 3 years ago
- Utility functions for FACETS☆34Updated 10 months ago
- CNV analysis workflow code for the manuscript☆13Updated 4 years ago