Fast method for inferring cancer clonal population structure from SNV data.
☆77Jan 20, 2026Updated 7 months ago
Alternatives and similar repositories for pyclone-vi
Users that are interested in pyclone-vi are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Clonality inference in multiple tumor samples using phylogeny☆14Sep 12, 2017Updated 9 years ago
- Probabilistic model for inferring clonal population structure from deep NGS sequencing.☆126Aug 19, 2020Updated 6 years ago
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆27Aug 31, 2026Updated 2 weeks ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆149Sep 9, 2020Updated 6 years ago
- An R package for inferring the subclonal architecture of tumors☆124Mar 15, 2026Updated 6 months ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆53May 20, 2022Updated 4 years ago
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆15May 8, 2015Updated 11 years ago
- ☆86Apr 17, 2025Updated last year
- A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.☆44Aug 21, 2025Updated last year
- An R package to time somatic mutations☆73Dec 12, 2020Updated 5 years ago
- Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…☆44Apr 18, 2024Updated 2 years ago
- ☆28Sep 20, 2023Updated 3 years ago
- cDriver R package for finding candidate driver genes in cancers☆18Jan 18, 2018Updated 8 years ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆166Feb 12, 2026Updated 7 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Accucopy is a computational method that infers Allele-Specific Copy Number alterations from low-coverage low-purity tumor sequencing data…☆16Mar 6, 2024Updated 2 years ago
- Filters for Next Generation Sequencing☆13Oct 31, 2024Updated last year
- HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jo…☆72Updated this week
- Workflow for Sequenza, cellularity and ploidy☆28Jun 11, 2026Updated 3 months ago
- dN/dS methods to quantify selection in cancer and somatic evolution☆240Aug 25, 2026Updated 3 weeks ago
- Visualization tool for temporal clonal evolution.☆18Mar 13, 2020Updated 6 years ago
- ASCAT R package☆204Feb 12, 2026Updated 7 months ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72May 23, 2024Updated 2 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 4 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆57Mar 10, 2021Updated 5 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆103Updated this week
- Multi-sample cancer phylogeny reconstruction☆35Oct 19, 2017Updated 8 years ago
- A framework to infer mutational signatures in cancer over time☆58Jul 9, 2019Updated 7 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆80Sep 12, 2024Updated 2 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆34Feb 18, 2026Updated 7 months ago
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆122Updated this week
- SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…☆188Aug 4, 2026Updated last month
- v2.x of the microassembly based somatic variant caller☆29Sep 9, 2026Updated last week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆18Feb 19, 2020Updated 6 years ago
- Evolutionary frequency visualization tool of temporal data☆24Jan 25, 2022Updated 4 years ago
- ☆81Jul 12, 2023Updated 3 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆48Apr 16, 2021Updated 5 years ago
- Utility functions for FACETS☆40Oct 24, 2025Updated 10 months ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆36Jan 28, 2022Updated 4 years ago
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 years ago