Alternatives and similar repositories for CNApp

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

• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆65Updated 5 years ago
• PCAWG-11 / Evolution
  Code accompanying The Evolutionary history of 2,658 cancers
  ☆47Updated 4 years ago
• McGranahanLab / TcellExTRECT
  ☆48Updated last year
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆19Updated 2 years ago
• CebolaLab / CUTandTAG
  Analysis pipeline for CUT&TAG data
  ☆22Updated 5 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆28Updated 3 weeks ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆32Updated 3 years ago
• campbio / Manuscripts
  ☆15Updated last month
• ChrisMaherLab / ClonEvol
  ☆13Updated 8 years ago
• TheJacksonLaboratory / BRCA-LRseq-pipeline
  Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.
  ☆16Updated 3 years ago
• markowetzlab / CINSignatureQuantification
  Quantifying copy number signatures from absolute copy number profiles
  ☆26Updated 6 months ago
• cancersysbio / SCIMET
  Spatial Computational Inference of MEtastatic Timing (SCIMET)
  ☆14Updated 6 years ago
• slagtermaarten / LOHHLA
  Fork of https://bitbucket.org/mcgranahanlab/lohhla
  ☆18Updated 5 years ago
• wenweixiong / MARVEL
  ☆53Updated last year
• FJD-CEPH / aCNViewer
  Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
  ☆29Updated 6 years ago
• aet21 / EpiSCORE
  Epigenetic cell-type deconvolution from Single-Cell Omic Reference profiles
  ☆32Updated 10 months ago
• icbi-lab / Immunophenogram
  ☆41Updated 7 years ago
• gxiaolab / REDITs
  RNA editing tests
  ☆17Updated 5 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆30Updated 11 months ago
• omicsCore / scTyper
  scTyper: a comprehensive pipeline for the cell typing analysis of single-cell RNA-seq data
  ☆32Updated 3 years ago
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆35Updated 4 years ago
• gxiaolab / scAllele
  ☆40Updated 5 months ago
• ChongJenniferZhang / CLCA_WGS
  ☆27Updated 2 years ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆72Updated last year
• GerkeLab / TCGAhrd
  Homologous recombination deficiency in TCGA PanCancer Atlas
  ☆29Updated 5 years ago
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆28Updated 5 years ago
• immunogenomics / scHLApers
  Code to run the scHLApers pipeline for personalized single-cell HLA quantification
  ☆17Updated 2 years ago
• Aufiero / circRNAprofiler
  ☆12Updated 9 months ago