caravagnalab / CNAqc
CNAqc - Copy Number Alteration (CNA) Quality Check package
☆19Updated 2 months ago
Alternatives and similar repositories for CNAqc:
Users that are interested in CNAqc are comparing it to the libraries listed below
- knowledge-based genotyping of cancer hotspots from the tumor BAM files☆20Updated 3 years ago
- cDriver R package for finding candidate driver genes in cancers☆18Updated 7 years ago
- Python function for TMB snake plots☆16Updated 4 years ago
- DriverPower☆26Updated this week
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- R package to calculate the Aneuploidy Score from Chromosome Arm-level SCNAs/Aneuploidies (CAAs) as outlined and expanded by Shukla et al.…☆16Updated 3 years ago
- DRAGEN Tumor/Normal workflow post-processing☆22Updated last year
- ☆19Updated 3 years ago
- Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and …☆12Updated last week
- Implementation of FACETS for Terra☆12Updated last year
- iread☆23Updated 3 years ago
- ☆10Updated last year
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆14Updated 11 months ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 3 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆35Updated 2 years ago
- Pipeline for the identification of cancer-related mutations from RNA-seq data☆13Updated 3 years ago
- A flexible framework to annotate and prioritize cancer somatic mutations.☆8Updated 7 years ago
- A set of tools to annotate VCF files with expression and readcount data☆26Updated 4 months ago
- Codes and Data for FFPEsig manuscript☆15Updated last year
- Filter and prioritize fusion calls☆20Updated 3 months ago
- Differential ATAC-seq toolkit☆27Updated last year
- CNV analysis workflow code for the manuscript☆13Updated 4 years ago
- R wrapper for utilizing the SigProfilerMatrixGenerator framework☆20Updated 2 years ago
- Model-based subclonal deconvolution from bulk sequencing.☆33Updated 2 weeks ago
- Workflow for Sequenza, cellularity and ploidy☆19Updated 6 months ago
- ☆18Updated 5 months ago
- TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020☆31Updated 3 years ago
- Allele-Specific Expression by Single-Cell RNA Sequencing☆28Updated 4 years ago
- Quantifying copy number signatures from absolute copy number profiles☆23Updated 3 weeks ago
- Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R☆11Updated 3 years ago