An R package to time somatic mutations
☆72Dec 12, 2020Updated 5 years ago
Alternatives and similar repositories for MutationTimeR
Users that are interested in MutationTimeR are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆86Apr 17, 2025Updated last year
- Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)☆17Jan 15, 2020Updated 6 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆48Apr 16, 2021Updated 5 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 5 years ago
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 5 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Dirichlet Process based methods for subclonal reconstruction of tumours☆32Feb 18, 2026Updated 3 months ago
- Tumour stratification by maximum-likelihood repeated evolution from multi-region sequencing data☆67Dec 25, 2022Updated 3 years ago
- dN/dS methods to quantify selection in cancer and somatic evolution☆235May 15, 2025Updated last year
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆73May 23, 2024Updated 2 years ago
- Classifying tumor types based on Whole Genome Sequencing (WGS) data☆50Nov 20, 2023Updated 2 years ago
- 🌲 An easy-to-use and scalable toolkit for genomic alteration signature (a.k.a. mutational signature) analysis and visualization in R htt…☆162Dec 25, 2025Updated 5 months ago
- R package to do enrichment analysis for neoantigens☆13Feb 21, 2022Updated 4 years ago
- GCAP (Gene-level Circular Amplicon Prediction) firstly implements extrachromosomal DNA detection from whole-exome-sequencing (WES) data a…☆21Aug 22, 2025Updated 9 months ago
- An R package to plot maps of clone distributions in somatic evolution☆20Jan 8, 2024Updated 2 years 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.
- ☆79Jul 12, 2023Updated 2 years ago
- Battenberg R package for subclonal copynumber estimation☆97May 11, 2026Updated 3 weeks ago
- Model-based tumour subclonal deconvolution using population genetics☆36Dec 2, 2025Updated 6 months ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆36Jan 28, 2022Updated 4 years ago
- A framework to infer mutational signatures in cancer over time☆58Jul 9, 2019Updated 6 years ago
- ☆28Sep 20, 2023Updated 2 years ago
- Mutational signature analysis for low statistics SNV data☆66Aug 7, 2024Updated last year
- SigProfilerPlotting provides a standard tool for displaying all types of mutational signatures as well as all types of mutational pattern…☆53Feb 8, 2026Updated 4 months ago
- Inferring selection in cancer sequencing data using ABC and population based simulations☆12Jan 31, 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.
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆18Mar 24, 2026Updated 2 months ago
- R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after cor…☆32Oct 29, 2025Updated 7 months ago
- ASCAT R package☆203Feb 12, 2026Updated 3 months ago
- ☆12Sep 22, 2025Updated 8 months ago
- Annotates variants in MAF with OncoKB annotation.☆144Jun 1, 2026Updated last week
- Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids☆31Aug 8, 2023Updated 2 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆150Sep 9, 2020Updated 5 years ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆162Feb 12, 2026Updated 3 months ago
- Rocking R at UMCCR☆10Oct 11, 2020Updated 5 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.
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 years ago
- Fast method for inferring cancer clonal population structure from SNV data.☆74Jan 20, 2026Updated 4 months ago
- Spatial Tumor Microenvironment (SpatialTME) database is a comprehensive database designed for characterize tumor spatial microenvironment…☆13Dec 4, 2023Updated 2 years ago
- deconstructSigs☆144Apr 24, 2023Updated 3 years ago
- ☆14Mar 28, 2025Updated last year
- GeneDMRs is an R package to detect the differentially methylated regions based on genes, gene body, CpG islands and gene body interacted …☆10Nov 18, 2023Updated 2 years ago
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆121May 26, 2026Updated 2 weeks ago