Alternatives and similar repositories for MutationTimeR

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

• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• broadinstitute / PhylogicNDT
  ☆78Updated 6 months ago
• amf71 / cloneMap
  An R package to plot maps of clone distributions in somatic evolution
  ☆17Updated last year
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆71Updated last year
• gxiaolab / REDITs
  RNA editing tests
  ☆17Updated 5 years ago
• broadinstitute / RNA_MUTECT_1.0-1
  ☆39Updated 5 years ago
• McGranahanLab / TcellExTRECT
  ☆47Updated 9 months ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 8 years ago
• raphael-group / decifer
  DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…
  ☆21Updated last year
• fpbarthel / GLASS
  GLASS consortium
  ☆42Updated 5 years ago
• broadinstitute / gistic2
  Genomic Identification of Significant Targets in Cancer (GISTIC), version 2
  ☆52Updated 3 years ago
• PCAWG-11 / Evolution
  Code accompanying The Evolutionary history of 2,658 cancers
  ☆46Updated 4 years ago
• ait5 / CNApp
  CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…
  ☆20Updated 5 years ago
• stjude / ROSE
  ROSE: RANK ORDERING OF SUPER-ENHANCERS
  ☆54Updated last year
• ay-lab / ATACProc
  ATAC-seq processing pipeline
  ☆34Updated 3 years ago
• FJD-CEPH / aCNViewer
  Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
  ☆29Updated 6 years ago
• yezhengSTAT / CUTTag_tutorial
  Tutorial Website
  ☆61Updated 4 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆29Updated 8 months ago
• single-cell-genetics / cellSNP
  Pileup biallelic SNPs from single-cell and bulk RNA-seq data
  ☆80Updated 3 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆28Updated 2 years ago
• VCCRI / Sierra
  Discover differential transcript usage from polyA-captured single cell RNA-seq data
  ☆51Updated 2 years ago
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆60Updated last month
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆71Updated 9 months ago
• Wedge-lab / battenberg
  Battenberg R package for subclonal copynumber estimation
  ☆91Updated 3 months ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆30Updated 7 months ago
• sridnona / cb_sniffer
  mutation(barcode) caller for 10x single cell data
  ☆45Updated 5 years ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆70Updated 2 years ago
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆33Updated 5 years ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆42Updated 4 years ago