Probabilistic model for inferring clonal population structure from deep NGS sequencing.
☆127Aug 19, 2020Updated 6 years ago
Alternatives and similar repositories for pyclone
Users that are interested in pyclone are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆151Sep 9, 2020Updated 6 years ago
- Fast method for inferring cancer clonal population structure from SNV data.☆76Jan 20, 2026Updated 9 months ago
- Clonality inference in multiple tumor samples using phylogeny☆14Sep 12, 2017Updated 9 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 8 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆87Apr 17, 2025Updated last year
- dN/dS methods to quantify selection in cancer and somatic evolution☆243Aug 25, 2026Updated 2 months ago
- ASCAT R package☆205Feb 12, 2026Updated 8 months ago
- An R package for inferring the subclonal architecture of tumors☆125Mar 15, 2026Updated 7 months ago
- Application for inferring subclonal composition and evolution from whole-genome sequencing data.☆114Oct 12, 2022Updated 4 years ago
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆57Mar 10, 2021Updated 5 years ago
- Strelka2 germline and somatic small variant caller☆393Apr 20, 2026Updated 6 months ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆420May 25, 2026Updated 5 months ago
- Fork of the Polysolver project☆33Nov 21, 2019Updated 6 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆13Sep 18, 2017Updated 9 years ago
- Precision HLA typing from next-generation sequencing data☆225May 20, 2026Updated 5 months ago
- ☆121Sep 5, 2023Updated 3 years ago
- An R package to time somatic mutations☆71Dec 12, 2020Updated 5 years ago
- Microsatellite Instability (MSI) detection using high-throughput sequencing data.☆119Apr 2, 2025Updated last year
- Microsatellite Analysis for Normal-Tumor InStability☆79Jul 14, 2022Updated 4 years ago
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆15May 8, 2015Updated 11 years ago
- Annotates variants in MAF with OncoKB annotation.☆147Aug 25, 2026Updated 2 months ago
- ☆129Sep 5, 2023Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14May 28, 2019Updated 7 years ago
- Framework for Metastatic And Clonal History INtegrative Analysis☆39Mar 5, 2021Updated 5 years ago
- A curated list of awesome clonality and tumor heterogeneity resources☆16Jun 25, 2019Updated 7 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆45Apr 16, 2021Updated 5 years ago
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆20Jul 6, 2026Updated 3 months ago
- Microsatellite instability (MSI) detection for tumor only data.☆116Apr 23, 2024Updated 2 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆80Sep 12, 2024Updated 2 years ago
- Battenberg R package for subclonal copynumber estimation☆100May 11, 2026Updated 5 months ago
- microsatellite instability detection using tumor only or paired tumor-normal data☆133Jan 6, 2021Updated 5 years 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.
- Visualization tool for temporal clonal evolution.☆18Mar 13, 2020Updated 6 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆62Jun 7, 2019Updated 7 years ago
- deconstructSigs☆144Apr 24, 2023Updated 3 years ago
- VarDict☆204Jan 5, 2024Updated 2 years ago
- Create timecourse "fish plots" that show changes in the clonal architecture of tumors☆171Jan 28, 2026Updated 9 months ago
- Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.☆506Feb 25, 2026Updated 8 months ago
- HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jo…☆73Sep 29, 2026Updated last month