☆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
- Code accompanying The Evolutionary history of 2,658 cancers☆48Apr 16, 2021Updated 5 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆34Feb 18, 2026Updated 6 months ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆149Sep 9, 2020Updated 5 years ago
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 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.
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Jan 15, 2020Updated 6 years ago
- 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.☆72May 23, 2024Updated 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.☆114Oct 12, 2022Updated 3 years ago
- dN/dS methods to quantify selection in cancer and somatic evolution☆239Updated this week
- Fast method for inferring cancer clonal population structure from SNV data.☆77Jan 20, 2026Updated 6 months 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.
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆68Jun 30, 2026Updated last month
- An R package to plot maps of clone distributions in somatic evolution☆20Aug 3, 2026Updated 2 weeks ago
- Clonal structure identification through penalizing pairwise differences☆11Jul 22, 2026Updated 3 weeks ago
- ☆80Jul 12, 2023Updated 3 years ago
- Battenberg R package for subclonal copynumber estimation☆99May 11, 2026Updated 3 months ago
- Bayesian mixture models for estimating and clustering cancer cell fractions☆26Dec 20, 2022Updated 3 years ago
- A tool for timing complex copy number gains in cancer.☆22Dec 4, 2025Updated 8 months 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 last month
- HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jo…☆72Jul 31, 2026Updated 2 weeks 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.
- SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…☆24Jul 8, 2026Updated last month
- Updated SignatureAnalyzer-GPU with mutational spectra & RNA expression compatibility.☆84Jul 23, 2026Updated 3 weeks ago
- iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Genera…☆16Jun 11, 2026Updated 2 months ago
- ASCAT R package☆204Feb 12, 2026Updated 6 months ago
- Probabilistic model for inferring clonal population structure from deep NGS sequencing.☆125Aug 19, 2020Updated 5 years 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
- SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…☆188Aug 4, 2026Updated 2 weeks ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆123Jul 21, 2026Updated 3 weeks ago
- CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots☆99Aug 1, 2024Updated 2 years ago
- Framework for Metastatic And Clonal History INtegrative Analysis☆37Mar 5, 2021Updated 5 years ago
- Inferring selection in cancer sequencing data using ABC and population based simulations☆11Jan 31, 2021Updated 5 years ago
- ☆28Sep 20, 2023Updated 2 years ago
- Subclonal Hierarchy Inference from Somatic Mutations☆21Feb 25, 2025Updated last year
- 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