Alternatives and similar repositories for TRONCO

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

• smshuai / DriverPower
  DriverPower
  ☆26Updated 7 months ago
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆29Updated last year
• caravagnalab / CNAqc
  Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation
  ☆22Updated 3 months ago
• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆21Updated 3 years ago
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆29Updated 4 years ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆38Updated last year
• caravagnalab / mobster
  Model-based tumour subclonal deconvolution using population genetics
  ☆33Updated this week
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• mskcc / facets-suite
  Utility functions for FACETS
  ☆38Updated last year
• umccr / umccrise
  DRAGEN Tumor/Normal workflow post-processing
  ☆22Updated last year
• mskilab-org / fishHook
  R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after cor…
  ☆30Updated 2 years ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• Dowell-Lab / DAStk
  Differential ATAC-seq toolkit
  ☆27Updated last year
• rthurman / hotspot
  Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.
  ☆16Updated 11 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆36Updated 2 years ago
• mskilab-org / gTrack
  R package for visualizing complex and multi-track 1D and 2D genomic data in GenomicRanges framework
  ☆17Updated 7 months ago
• vanallenlab / facets
  Implementation of FACETS for Terra
  ☆12Updated 2 years ago
• d3b-center / annoFuse
  Filter and prioritize fusion calls
  ☆20Updated 11 months ago
• elyadlezmi / RNA2CM
  Pipeline for the identification of cancer-related mutations from RNA-seq data
  ☆14Updated 4 years ago
• pinellolab / haystack_bio
  Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆47Updated 3 years ago
• hanasusak / cDriver
  cDriver R package for finding candidate driver genes in cancers
  ☆18Updated 7 years ago
• slowkow / cellguide
  🧭 Navigate single-cell RNA-seq datasets in your web browser.
  ☆29Updated 2 years ago
• jernst98 / ChromImpute
  ☆16Updated last year
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆36Updated 3 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
• jrflab / modules
  MSKCC Reis-Filho Lab pipeline thingy
  ☆17Updated 3 months ago
• gagneurlab / OUTRIDER
  OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
  ☆53Updated last month
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 5 months ago
• AlexandrovLab / TMB_plotter
  Python function for TMB snake plots
  ☆16Updated 5 years ago
• mhalushka / miRge
  miRge - microRNA alignment software for small RNA-seq data, now at v2.0
  ☆27Updated 3 years ago