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
• hanasusak / cDriver
  cDriver R package for finding candidate driver genes in cancers
  ☆18Updated 7 years ago
• gerstung-lab / tensorsignatures
  A python package for learning mutational signatures and their multidimensional genomic properties
  ☆14Updated 4 years ago
• morrislab / TrackSig
  A framework to infer mutational signatures in cancer over time
  ☆53Updated 5 years ago
• Acare / hacksig
  A Tidy Framework to Hack Gene Expression Signatures
  ☆19Updated 2 years ago
• gerstung-lab / PCAWG-11
  Code accompanying "The evolutionary history of 2,658 cancers", Nature 578, 122–128 (2020)
  ☆17Updated 5 years ago
• luisgls / SOPRANO
  SelectiOn in PRotein ANnotated regiOns. Adapted dN/dS based method to detect selection in specific protein regions
  ☆11Updated 10 months ago
• marcjwilliams1 / SubClonalSelection.jl
  Inferring selection in cancer sequencing data using ABC and population based simulations
  ☆11Updated 4 years ago
• Townsend-Lab-Yale / cancereffectsizeR
  cancereffectsizeR: Estimate somatic mutation rates and quantify selection in cancer
  ☆18Updated 2 weeks ago
• cole-trapnell-lab / pseudospace
  ☆12Updated 5 years ago
• liulab-dfci / lisa
  epigenome analysis to rank transcription factors
  ☆13Updated 5 years ago
• Vivianstats / scLink
  Inferring gene co-expression networks from single cell gene expression data
  ☆24Updated 2 years ago
• caravagnalab / mobster
  Model-based subclonal deconvolution from bulk sequencing.
  ☆33Updated 2 months ago
• const-ae / transformGamPoi-Paper
  ☆26Updated last year
• sigven / oncoEnrichR
  Explore the cancer relevance of your gene list
  ☆49Updated this week
• caravagnalab / CNAqc
  CNAqc - Copy Number Alteration (CNA) Quality Check package
  ☆19Updated this week
• SpatialTranscriptomicsResearch / std-nb
  Negative binomial regression for Spatial Transcriptomics data as described in Maaskola et al. 2018
  ☆21Updated 6 years ago
• gersteinlab / siglasso
  Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood
  ☆10Updated 2 years ago
• single-cell-genetics / XClone
  Detection of allele-specific subclonal copy number alterations from single-cell transcriptomic data.
  ☆36Updated 4 months ago
• xqzou / Cell_MutagenSig
  Codes to regenerate figures for mutagen paper
  ☆11Updated 3 years ago
• Katsevich-Lab / sceptre
  An R package for single-cell CRISPR screen data analysis emphasizing statistical rigor, massive scalability, and ease of use.
  ☆26Updated last month
• liulab-dfci / TRUST4_manuscript_evaluation
  TRUST4 manuscript evaluation
  ☆14Updated 2 years ago
• XSLiuLab / tumor-immunogenicity-score
  TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020
  ☆31Updated 3 years ago
• stephaniehicks / methylCC
  R/BioC package to estimate the cell composition of whole blood in DNA methylation samples in microarray or sequencing platforms
  ☆19Updated 2 years ago
• marrlab / CAR_T_TargetIdentification
  Computational identification of targets for CAR-T cell therapy in AML
  ☆16Updated 2 years ago
• hammerlab / multi-omic-urothelial-anti-pdl1
  Contribution of systemic and somatic factors to clinical response and resistance in urothelial cancer: an exploratory multi-omic analysis
  ☆22Updated 7 years ago
• veltenlab / mitoClone
  ☆12Updated 3 years ago
• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆20Updated 3 years ago
• yizhak-lab-ccg / RNA_MUTECt_WMN
  ☆22Updated 2 years ago
• KChen-lab / SCMarker
  Marker gene selection from scRNA-seq data
  ☆15Updated 4 years ago