Decrypting somatic mutation patterns to reveal the evolution of cancer
☆57Mar 10, 2021Updated 5 years ago
Alternatives and similar repositories for treeomics
Users that are interested in treeomics 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 selection in cancer sequencing data using ABC and population based simulations☆11Jan 31, 2021Updated 5 years ago
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 5 years ago
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆68Jun 30, 2026Updated last month
- Clonality inference in multiple tumor samples using phylogeny☆14Sep 12, 2017Updated 8 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆149Sep 9, 2020Updated 5 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.
- Somatic point mutation caller☆17Jul 8, 2016Updated 10 years ago
- A framework to infer mutational signatures in cancer over time☆58Jul 9, 2019Updated 7 years ago
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 years ago
- ☆86Apr 17, 2025Updated last year
- A comprehensive pipeline to analyze and visualize structural variants☆20Jan 28, 2020Updated 6 years ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆162Feb 12, 2026Updated 5 months ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72May 23, 2024Updated 2 years ago
- ☆37Jul 28, 2019Updated 7 years ago
- Multi-sample cancer phylogeny reconstruction☆36Oct 19, 2017Updated 8 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Probabilistic model for inferring clonal population structure from deep NGS sequencing.☆125Aug 19, 2020Updated 5 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆71Nov 20, 2020Updated 5 years ago
- Analysis pipeline for cancer sequencing data☆113Apr 24, 2026Updated 3 months ago
- Microsatellite instability (MSI) detection for tumor only data.☆117Apr 23, 2024Updated 2 years ago
- An R package for predicting HR deficiency from mutation contexts☆30Feb 13, 2025Updated last year
- Utility functions for FACETS☆40Oct 24, 2025Updated 9 months ago
- Bayesian mixture models for estimating and clustering cancer cell fractions☆26Dec 20, 2022Updated 3 years ago
- Molecular analysis of pre-invasive lung cancer samples☆14Jan 18, 2019Updated 7 years ago
- dN/dS methods to quantify selection in cancer and somatic evolution☆239May 15, 2025Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.☆71Aug 22, 2021Updated 4 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆48Apr 16, 2021Updated 5 years ago
- Fast method for inferring cancer clonal population structure from SNV data.☆75Jan 20, 2026Updated 6 months ago
- A tool for timing complex copy number gains in cancer.☆21Dec 4, 2025Updated 8 months ago
- Framework for Metastatic And Clonal History INtegrative Analysis☆37Mar 5, 2021Updated 5 years ago
- MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.☆59Jul 2, 2026Updated last month
- deconstructSigs☆144Apr 24, 2023Updated 3 years ago
- SNV expectation maximisation based mutation calling algorithm aimed at detecting somatic mutations in paired (tumour/normal) cancer sampl…☆86Apr 24, 2025Updated last year
- A curated list of awesome clonality and tumor heterogeneity resources☆16Jun 25, 2019Updated 7 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆18Feb 19, 2020Updated 6 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆79Sep 12, 2024Updated last year
- Battenberg algorithm and associated implementation script☆55Oct 21, 2020Updated 5 years ago
- cancereffectsizeR: An R package for calculation of somatic mutation rates and quantification of selection in cancer☆20Jan 6, 2026Updated 7 months ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Jul 27, 2023Updated 3 years ago
- Integrative pipeline for profiling DNA copy number and inferring tumor phylogeny☆20Jan 15, 2020Updated 6 years ago
- 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