VanLoo-lab / ascatView external linksLinks
ASCAT R package
☆199Updated this week
Alternatives and similar repositories for ascat
Users that are interested in ascat are comparing it to the libraries listed below
Sorting:
- Battenberg R package for subclonal copynumber estimation☆95Dec 8, 2025Updated 2 months ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆158Jan 29, 2026Updated 2 weeks ago
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆44Aug 24, 2022Updated 3 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆71Nov 20, 2020Updated 5 years ago
- ☆25Updated this week
- dN/dS methods to quantify selection in cancer and somatic evolution☆231May 15, 2025Updated 8 months ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆100Apr 20, 2021Updated 4 years ago
- Microsatellite Instability (MSI) detection using high-throughput sequencing data.☆115Apr 2, 2025Updated 10 months ago
- deconstructSigs☆144Apr 24, 2023Updated 2 years ago
- SV clustering☆31Jul 5, 2021Updated 4 years ago
- ☆119Sep 5, 2023Updated 2 years ago
- Model-based tumour subclonal deconvolution using population genetics☆34Dec 2, 2025Updated 2 months ago
- Microsatellite instability (MSI) detection for tumor only data.☆113Apr 23, 2024Updated last year
- Concordance and contamination estimator for tumor–normal pairs☆59Oct 22, 2024Updated last year
- microsatellite instability detection using tumor only or paired tumor-normal data☆132Jan 6, 2021Updated 5 years ago
- Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.☆484Jan 27, 2026Updated 2 weeks ago
- Mutational signature analysis for low statistics SNV data☆64Aug 7, 2024Updated last year
- Copy number variant detection from targeted DNA sequencing☆601Updated this week
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆409Aug 2, 2025Updated 6 months ago
- Copy number calling and variant classification using targeted short read sequencing☆142Aug 28, 2025Updated 5 months ago
- A framework to infer mutational signatures in cancer over time☆56Jul 9, 2019Updated 6 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆149Sep 9, 2020Updated 5 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆75Sep 12, 2024Updated last year
- ☆11Apr 25, 2024Updated last year
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 4 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆53May 20, 2022Updated 3 years ago
- An R package to time somatic mutations☆65Dec 12, 2020Updated 5 years ago
- Software program for checking sample matching for NGS data☆137Jun 20, 2024Updated last year
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆117Updated this week
- A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.☆42Aug 21, 2025Updated 5 months ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Jun 7, 2019Updated 6 years ago
- Application for inferring subclonal composition and evolution from whole-genome sequencing data.☆113Oct 12, 2022Updated 3 years ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆53Apr 8, 2022Updated 3 years ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆175Aug 22, 2024Updated last year
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆25Jan 28, 2026Updated 2 weeks ago
- Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.☆199Mar 20, 2024Updated last year
- Battenberg algorithm and associated implementation script☆53Oct 21, 2020Updated 5 years ago
- Annotates variants in MAF with OncoKB annotation.☆141Jan 8, 2026Updated last month
- Workflow for Sequenza, cellularity and ploidy☆26Aug 19, 2025Updated 5 months ago