Alternatives and similar repositories for CNAqc:

Users that are interested in CNAqc are comparing it to the libraries listed below

• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆21Updated 3 years ago
• AlexandrovLab / TMB_plotter
  Python function for TMB snake plots
  ☆16Updated 4 years ago
• beroukhim-lab / ascets
  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
• beroukhim-lab / BISCUT-py3
  ☆12Updated last year
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆36Updated 3 years ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 2 months ago
• d3b-center / annoFuse
  Filter and prioritize fusion calls
  ☆20Updated 7 months ago
• CompEpigen / ezASCAT
  Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R
  ☆11Updated 3 years ago
• quevedor2 / aneuploidy_score
  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
• bioinform / ecTMB
  ☆19Updated 3 years ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 3 months ago
• gersteinlab / FunSeq2
  A flexible framework to annotate and prioritize cancer somatic mutations.
  ☆8Updated 8 years ago
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆16Updated last year
• parklab / MSIprofiler
  Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data
  ☆20Updated last year
• caravagnalab / mobster
  Model-based subclonal deconvolution from bulk sequencing.
  ☆33Updated 4 months ago
• shbrief / CNVWorkflow_Code
  CNV analysis workflow code for the manuscript
  ☆13Updated 4 years ago
• ShixiangWang / Variants2Neoantigen
  A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
  ☆29Updated 5 years ago
• AlexandrovLab / SigProfilerClusters
  Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and …
  ☆12Updated 2 weeks ago
• umccr / umccrise
  DRAGEN Tumor/Normal workflow post-processing
  ☆22Updated last year
• hanasusak / cDriver
  cDriver R package for finding candidate driver genes in cancers
  ☆18Updated 7 years ago
• TRON-Bioinformatics / splice2neo
  R package to analyze aberrant splicing junctions in tumor samples to identify neoepitopes
  ☆14Updated 3 weeks ago
• oicr-gsi / sequenza
  Workflow for Sequenza, cellularity and ploidy
  ☆18Updated last month
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 7 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆34Updated 2 years ago
• skandlab / MutSpot
  ☆15Updated last year
• annaquaglieri16 / varikondo
  R package to organise and standardise your genomic variant calls obtained with different callers.
  ☆11Updated 5 years ago
• flemingtonlab / SpliceTools
  ☆17Updated 9 months ago
• vanallenlab / facets
  Implementation of FACETS for Terra
  ☆12Updated 2 years ago