caravagnalab / CNAqcLinks
Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation
☆24Updated last month
Alternatives and similar repositories for CNAqc
Users that are interested in CNAqc are comparing it to the libraries listed below
Sorting:
- knowledge-based genotyping of cancer hotspots from the tumor BAM files☆21Updated 3 years ago
- Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R☆12Updated 3 years ago
- DriverPower☆26Updated 10 months ago
- Python function for TMB snake plots☆16Updated 5 years ago
- Codes and Data for FFPEsig manuscript☆17Updated last year
- Flexible Bayesian inference of mutational signatures☆37Updated 2 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆35Updated 3 years ago
- Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…☆41Updated last year
- ☆18Updated 4 years ago
- ☆12Updated last year
- A set of tools to annotate VCF files with expression and readcount data☆29Updated 8 months ago
- Filter and prioritize fusion calls☆20Updated last year
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 7 years ago
- Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and …☆13Updated 3 months ago
- Model-based tumour subclonal deconvolution using population genetics☆33Updated 2 weeks ago
- ☆17Updated last year
- DRAGEN Tumor/Normal workflow post-processing☆23Updated 2 years ago
- A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)☆29Updated 6 years ago
- Multi-sample cancer phylogeny reconstruction☆36Updated 8 years ago
- Utility functions for FACETS☆39Updated 3 weeks ago
- iread☆25Updated 4 years ago
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆18Updated last year
- MSKCC Reis-Filho Lab pipeline thingy☆18Updated last month
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 3 years ago
- Sigflow: Streamline Analysis Workflows for Mutational Signatures, https://github.com/ShixiangWang/sigflow/pkgs/container/sigflow☆29Updated last year
- Workflow for Sequenza, cellularity and ploidy☆24Updated 3 months ago
- R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…☆16Updated 4 years ago
- Differential ATAC-seq toolkit☆27Updated last year
- Visualization tool for temporal clonal evolution.☆18Updated 5 years ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 4 years ago