dN/dS methods to quantify selection in cancer and somatic evolution
☆232May 15, 2025Updated 9 months ago
Alternatives and similar repositories for dndscv
Users that are interested in dndscv are comparing it to the libraries listed below
Sorting:
- Battenberg R package for subclonal copynumber estimation☆95Feb 20, 2026Updated last week
- ASCAT R package☆199Feb 12, 2026Updated 2 weeks ago
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆67Dec 25, 2022Updated 3 years ago
- An R package to time somatic mutations☆66Dec 12, 2020Updated 5 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆150Sep 9, 2020Updated 5 years ago
- deconstructSigs☆144Apr 24, 2023Updated 2 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆32Feb 18, 2026Updated last week
- ☆84Apr 17, 2025Updated 10 months ago
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆117Feb 8, 2026Updated 3 weeks ago
- A framework to infer mutational signatures in cancer over time☆56Jul 9, 2019Updated 6 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72May 23, 2024Updated last year
- Probabilistic model for inferring clonal population structure from deep NGS sequencing.☆118Aug 19, 2020Updated 5 years ago
- An R package for inferring the subclonal architecture of tumors☆122Oct 13, 2023Updated 2 years ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆412Feb 20, 2026Updated last week
- R package containing useful functions for mutational signature analysis☆86Updated this week
- SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…☆177Feb 1, 2026Updated last month
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 5 years ago
- Model-based tumour subclonal deconvolution using population genetics☆35Dec 2, 2025Updated 3 months ago
- A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.☆42Aug 21, 2025Updated 6 months ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆158Feb 12, 2026Updated 2 weeks ago
- DriverPower☆26Jan 18, 2025Updated last year
- Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.☆70Aug 22, 2021Updated 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…☆44Aug 24, 2022Updated 3 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆47Apr 16, 2021Updated 4 years ago
- Create timecourse "fish plots" that show changes in the clonal architecture of tumors☆172Jan 28, 2026Updated last month
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆56Mar 10, 2021Updated 4 years ago
- Application for inferring subclonal composition and evolution from whole-genome sequencing data.☆114Oct 12, 2022Updated 3 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 4 years ago
- Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.☆485Feb 25, 2026Updated last week
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆279May 21, 2025Updated 9 months ago
- Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.☆115Sep 2, 2024Updated last year
- Various algorithms for analysing genomics data☆264Updated this week
- cDriver R package for finding candidate driver genes in cancers☆18Jan 18, 2018Updated 8 years ago
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 years ago
- structure detection program☆18Nov 20, 2024Updated last year
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆53May 20, 2022Updated 3 years ago
- R package for extracting and visualizing mutational patterns in base substitution catalogues☆107Nov 22, 2022Updated 3 years ago
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆25Jan 28, 2026Updated last month
- ☆13Sep 24, 2025Updated 5 months ago