Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
☆162Feb 12, 2026Updated 5 months ago
Alternatives and similar repositories for facets
Users that are interested in facets are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Utility functions for FACETS☆40Oct 24, 2025Updated 9 months ago
- Somatic copy variant caller (CNV) for next generation sequencing☆79Sep 12, 2024Updated last year
- ASCAT R package☆204Feb 12, 2026Updated 5 months ago
- microsatellite instability detection using tumor only or paired tumor-normal data☆134Jan 6, 2021Updated 5 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆61Jun 7, 2019Updated 7 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.
- Copy number calling and variant classification using targeted short read sequencing☆150Feb 19, 2026Updated 5 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
- ☆127Sep 5, 2023Updated 2 years ago
- This is a read-only mirror of the CRAN R package repository. sequenza — Copy Number Estimation from Tumor Genome Sequencing Data. Homep…☆22May 9, 2019Updated 7 years ago
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆57Mar 10, 2021Updated 5 years ago
- Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.☆214Mar 20, 2024Updated 2 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72May 23, 2024Updated 2 years ago
- Concordance and contamination estimator for tumor–normal pairs☆60Oct 22, 2024Updated last year
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆103Jul 24, 2026Updated 2 weeks ago
- 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.
- Copy number variant detection from targeted DNA sequencing☆616Updated this week
- Microsatellite instability (MSI) detection for tumor only data.☆117Apr 23, 2024Updated 2 years ago
- Microsatellite Instability (MSI) detection using high-throughput sequencing data.☆117Apr 2, 2025Updated last year
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆419May 25, 2026Updated 2 months ago
- Software program for checking sample matching for NGS data☆142Jun 20, 2024Updated 2 years ago
- Probabilistic model for inferring clonal population structure from deep NGS sequencing.☆125Aug 19, 2020Updated 5 years ago
- Mutational signature analysis for low statistics SNV data☆66Aug 7, 2024Updated 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…☆163Dec 25, 2025Updated 7 months ago
- Fast method for inferring cancer clonal population structure from SNV data.☆75Jan 20, 2026Updated 6 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.☆499Feb 25, 2026Updated 5 months ago
- cDriver R package for finding candidate driver genes in cancers☆18Jan 18, 2018Updated 8 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆149Sep 9, 2020Updated 5 years ago
- Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…☆54Jun 5, 2017Updated 9 years ago
- Annotates variants in MAF with OncoKB annotation.☆146Jun 25, 2026Updated last month
- Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA☆28Jun 6, 2024Updated 2 years ago
- Microassembly based somatic variant caller for NGS data☆154Jun 23, 2022Updated 4 years ago
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14May 28, 2019Updated 7 years ago
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆528Updated this week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Jul 30, 2020Updated 6 years ago
- Analysis pipeline for cancer sequencing data☆113Apr 24, 2026Updated 3 months ago
- dN/dS methods to quantify selection in cancer and somatic evolution☆239May 15, 2025Updated last year
- STAR-Fusion codebase☆254Apr 18, 2026Updated 3 months ago
- Fast and accurate gene fusion detection from RNA-Seq data☆273Sep 21, 2025Updated 10 months ago
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆285May 21, 2025Updated last year
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆178Aug 22, 2024Updated last year