PoisonAlien / somaticfreqLinks
knowledge-based genotyping of cancer hotspots from the tumor BAM files
☆21Updated 3 years ago
Alternatives and similar repositories for somaticfreq
Users that are interested in somaticfreq are comparing it to the libraries listed below
Sorting:
- CNAqc - Copy Number Alteration (CNA) Quality Check package☆22Updated 3 weeks 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
- This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…☆16Updated last year
- Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R☆11Updated 3 years ago
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- Filter and prioritize fusion calls☆20Updated 8 months ago
- Python function for TMB snake plots☆16Updated 4 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆36Updated 3 years ago
- DriverPower☆26Updated 5 months ago
- ☆18Updated 3 years ago
- ☆17Updated 11 months ago
- cDriver R package for finding candidate driver genes in cancers☆18Updated 7 years ago
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆17Updated 5 years ago
- Singularity port of HLA typing based on an input exome BAM file and is currently infers infers alleles for the three major MHC class I (…☆13Updated 8 years ago
- ☆16Updated 2 years ago
- ☆12Updated last year
- Isoform co-usage networks from single-cell RNA-seq data☆16Updated last year
- DRAGEN Tumor/Normal workflow post-processing☆22Updated last year
- Workflow for Sequenza, cellularity and ploidy☆19Updated 2 weeks ago
- Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.☆16Updated 3 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated last year
- Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and …☆12Updated 3 weeks ago
- Codes and Data for FFPEsig manuscript☆17Updated last year
- Code for EpiMap data browser☆14Updated last year
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆29Updated 10 months ago
- CNV analysis workflow code for the manuscript☆13Updated 5 years ago
- Model-based subclonal deconvolution from bulk sequencing.☆33Updated 5 months ago
- A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)☆29Updated 5 years ago
- Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data☆20Updated last year
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 4 years ago