Alternatives and similar repositories for clonesig

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

• marcjwilliams1 / neutralitytestr
  Testing a neutral evolution model on cancer sequencing data
  ☆10Updated 4 years ago
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 5 years ago
• hanasusak / cDriver
  cDriver R package for finding candidate driver genes in cancers
  ☆18Updated 7 years ago
• gerstung-lab / PCAWG-11
  Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)
  ☆17Updated 5 years ago
• caravagnalab / mobster
  Model-based subclonal deconvolution from bulk sequencing.
  ☆33Updated 4 months ago
• cole-trapnell-lab / pseudospace
  ☆12Updated 5 years ago
• astrazeneca-cgr-publications / PEACOK
  Phenome Exome Association and Correlation Of Key phenotypes
  ☆28Updated 3 years ago
• Vivianstats / scINSIGHT
  Matrix factorization model for interpreting single cell gene expression in biologically heterogeneous data
  ☆21Updated last year
• liulab-dfci / TRUST4_manuscript_evaluation
  TRUST4 manuscript evaluation
  ☆14Updated 2 years ago
• Townsend-Lab-Yale / cancereffectsizeR
  cancereffectsizeR: Estimate somatic mutation rates and quantify selection in cancer
  ☆18Updated last month
• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆21Updated 3 years ago
• kircherlab / cfDNA
  cfDNA analysis workflow
  ☆21Updated last year
• morrislab / TrackSig
  A framework to infer mutational signatures in cancer over time
  ☆53Updated 5 years ago
• GuanLab / FastClone_GuanLab
  ☆15Updated 3 years ago
• skandlab / MutSpot
  ☆15Updated 2 years ago
• sigven / oncoEnrichR
  Explore the cancer relevance of your gene list
  ☆51Updated 2 months ago
• ShixiangWang / gcap
  GCAP (Gene-level Circular Amplicon Prediction) firstly implements extrachromosomal DNA detection from whole-exome-sequencing (WES) data a…
  ☆19Updated 4 months ago
• caravagnalab / CNAqc
  CNAqc - Copy Number Alteration (CNA) Quality Check package
  ☆21Updated last week
• kharchenkolab / hahmmr
  Haplotype-aware Hidden Markov Models for detecting CNVs from bulk RNA-seq
  ☆13Updated last year
• 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
• marrlab / CAR_T_TargetIdentification
  Computational identification of targets for CAR-T cell therapy in AML
  ☆16Updated 2 years ago
• yizhak-lab-ccg / RNA_MUTECt_WMN
  ☆23Updated 2 years ago
• vanallenlab / facets
  Implementation of FACETS for Terra
  ☆12Updated 2 years ago
• NourMarzouka / multiclassPairs
  Build single sample pair-based (rule-based) classifiers using top-score pairs or random forest for multi-class problems.
  ☆12Updated 2 years ago
• raphael-group / calder
  CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …
  ☆15Updated last year
• bhklab / Xeva
  XEnograft Visualization & Analysis
  ☆11Updated last month
• Acare / hacksig
  A Tidy Framework to Hack Gene Expression Signatures
  ☆19Updated 3 weeks ago
• AlexandrovLab / SigProfilerTopography
  SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…
  ☆19Updated 2 months ago
• cancersysbio / SCIMET
  Spatial Computational Inference of MEtastatic Timing (SCIMET)
  ☆14Updated 5 years ago
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆36Updated 3 years ago