Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
☆18Dec 9, 2025Updated 2 months ago
Alternatives and similar repositories for ichorCNA
Users that are interested in ichorCNA are comparing it to the libraries listed below
Sorting:
- mutSignatures R package - updated (dev) version - 2.1.4☆14Jan 18, 2023Updated 3 years ago
- ☆11Apr 25, 2024Updated last year
- Code for the paper "MetaQ: fast, scalable and accurate metacell inference via deep single-cell quantization"☆23Dec 7, 2024Updated last year
- ☆27Feb 9, 2026Updated 3 weeks ago
- A flexible framework for nucleosome profiling of cell-free DNA☆29Jul 27, 2023Updated 2 years ago
- R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after cor…☆32Oct 29, 2025Updated 4 months ago
- 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
- ☆10Dec 2, 2025Updated 3 months ago
- Clonal structure identification through penalizing pairwise differences☆11Nov 25, 2025Updated 3 months ago
- ☆11Sep 22, 2025Updated 5 months ago
- ABSOLUTE source code that works with allelic copy ratio on both hg19 and hg38☆13Nov 5, 2025Updated 3 months ago
- Msuite2: integrated DNA methylation data analysis toolkit with enhanced performance☆10Jan 21, 2025Updated last year
- ☆10Jul 9, 2024Updated last year
- Somatic coding and non-coding mutation enrichment analysis for tumor WGS data☆12Jun 16, 2021Updated 4 years ago
- GPU implementation of ARD NMF☆45Jan 20, 2026Updated last month
- ☆49Jan 4, 2023Updated 3 years ago
- Inferring selection in cancer sequencing data using ABC and population based simulations☆12Jan 31, 2021Updated 5 years ago
- A crate for working with genomics chain files.☆12Aug 6, 2025Updated 6 months ago
- Mutational Signature Comprehensive Analysis Toolkit☆15Feb 19, 2026Updated last week
- Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood☆10Aug 22, 2022Updated 3 years ago
- Testing a neutral evolution model on cancer sequencing data☆10Feb 17, 2021Updated 5 years ago
- Collection of fragmentomic analysis scripts☆12Jul 3, 2024Updated last year
- ☆11Mar 4, 2025Updated 11 months ago
- ☆10Nov 30, 2024Updated last year
- 🍁 Collection of useful R utilities and snippets☆10Nov 21, 2023Updated 2 years ago
- Identify one or more connected, focally amplified genomic regions to elucidate the architecture of focal amplifications such as ecDNA.☆10Feb 6, 2026Updated 3 weeks ago
- ☆11Jun 14, 2023Updated 2 years ago
- ☆11May 2, 2025Updated 10 months ago
- SkewC a novel quality-assessment method to identify poor quality single-cells in scRNA-seq experiments. The method relies on the measure …☆10Aug 2, 2023Updated 2 years ago
- R package to organise and standardise your genomic variant calls obtained with different callers.☆11Jul 15, 2019Updated 6 years ago
- BayesTME: A reference-free Bayesian method for analyzing spatial transcriptomics data☆14Apr 29, 2025Updated 10 months ago
- ☆13Sep 24, 2025Updated 5 months ago
- scMalignantFinder is a Python package specially designed for analyzing cancer single-cell RNA-seq datasets to distinguish malignant cells…☆17Feb 20, 2026Updated last week
- Pipeline for RNA and DNA integrated analysis for somatic mutation detection☆14Feb 17, 2026Updated last week
- Scripts for analyses in the Griffin manuscript☆11Dec 14, 2022Updated 3 years ago
- fastCNV R package to detect putative CNVs in single cell and spatial transcriptomics data☆40Updated this week
- ☆12Nov 21, 2023Updated 2 years ago
- A python package for learning mutational signatures and their multidimensional genomic properties☆15Sep 1, 2020Updated 5 years ago
- Haplotype-based somatic genome simulator☆10May 19, 2017Updated 8 years ago