☆86Apr 17, 2025Updated last year
Alternatives and similar repositories for PhylogicNDT
Users that are interested in PhylogicNDT are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- An R package to time somatic mutations☆73Dec 12, 2020Updated 5 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆33Feb 18, 2026Updated 4 months ago
- Code accompanying The Evolutionary history of 2,658 cancers☆48Apr 16, 2021Updated 5 years ago
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Jan 15, 2020Updated 6 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆150Sep 9, 2020Updated 5 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 5 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆73May 23, 2024Updated 2 years ago
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 years ago
- A framework to infer mutational signatures in cancer over time☆58Jul 9, 2019Updated 7 years ago
- Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data☆21Apr 22, 2024Updated 2 years ago
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆57Mar 10, 2021Updated 5 years ago
- Application for inferring subclonal composition and evolution from whole-genome sequencing data.☆115Oct 12, 2022Updated 3 years ago
- dN/dS methods to quantify selection in cancer and somatic evolution☆236May 15, 2025Updated last year
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆67Jun 30, 2026Updated last week
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- An R package to plot maps of clone distributions in somatic evolution☆20Jan 8, 2024Updated 2 years ago
- Clonal structure identification through penalizing pairwise differences☆11May 14, 2026Updated last month
- ☆80Jul 12, 2023Updated 2 years ago
- Battenberg R package for subclonal copynumber estimation☆97May 11, 2026Updated last month
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆20Updated this week
- Bayesian mixture models for estimating and clustering cancer cell fractions☆26Dec 20, 2022Updated 3 years ago
- HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jo…☆72Mar 19, 2026Updated 3 months ago
- SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…☆24May 21, 2026Updated last month
- iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Genera…☆16Jun 11, 2026Updated 3 weeks ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Probabilistic model for inferring clonal population structure from deep NGS sequencing.☆125Aug 19, 2020Updated 5 years ago
- ASCAT R package☆202Feb 12, 2026Updated 4 months ago
- Updated SignatureAnalyzer-GPU with mutational spectra & RNA expression compatibility.☆84Jan 20, 2026Updated 5 months ago
- Visualization tool for temporal clonal evolution.☆18Mar 13, 2020Updated 6 years ago
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 5 years ago
- ☆14Mar 28, 2025Updated last year
- CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots☆99Aug 1, 2024Updated last year
- SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…☆186Jun 18, 2026Updated 3 weeks ago
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆122May 26, 2026Updated last month
- 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.
- Inferring selection in cancer sequencing data using ABC and population based simulations☆12Jan 31, 2021Updated 5 years ago
- Fast method for inferring cancer clonal population structure from SNV data.☆75Jan 20, 2026Updated 5 months ago
- A tool for timing complex copy number gains in cancer.☆21Dec 4, 2025Updated 7 months ago
- ☆28Sep 20, 2023Updated 2 years ago
- Framework for Metastatic And Clonal History INtegrative Analysis☆37Mar 5, 2021Updated 5 years ago
- AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …☆162Jun 18, 2024Updated 2 years ago
- Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests☆50Aug 3, 2024Updated last year