Alternatives and similar repositories for dryclean

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

• ChrisMaherLab / ClonEvol
  ☆13Updated 8 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆30Updated 10 months ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆72Updated last year
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆31Updated 9 months ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆32Updated 2 years ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆65Updated 5 years ago
• hellbelly / BS-Snper
  ☆39Updated 4 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• mcmero / SVclone
  A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.
  ☆42Updated 4 months ago
• FJD-CEPH / aCNViewer
  Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
  ☆29Updated 6 years ago
• aryeelab / hichipper
  A preprocessing and QC pipeline for HiChIP data
  ☆40Updated 3 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 3 years ago
• mskcc / facets-suite
  Utility functions for FACETS
  ☆39Updated 2 months ago
• eyzhao / hrdetect-pipeline
  ☆36Updated 6 years ago
• rcavalcante / annotatr
  Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…
  ☆27Updated 2 months ago
• parklab / MuSiCal
  A comprehensive toolkit for mutational signature analysis
  ☆42Updated last year
• pk7zuva / Circle_finder
  Micro DNA identification
  ☆24Updated 4 years ago
• mskilab-org / fishHook
  R package for applying Gamma-Poisson regression to identify statistical enrichment or depletion of somatic mutations in regions after cor…
  ☆31Updated 2 months ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆32Updated 4 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated last year
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆44Updated 3 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• thelovelab / rnaseqDTU
  RNA-seq workflow: differential transcript usage
  ☆23Updated 2 years ago
• Xinglab / rMATS-long
  ☆34Updated last month
• raphael-group / chisel
  CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links
  ☆43Updated last year
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆42Updated last year
• raphael-group / decifer
  DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…
  ☆22Updated last year
• slagtermaarten / LOHHLA
  Fork of https://bitbucket.org/mcgranahanlab/lohhla
  ☆18Updated 5 years ago
• christacaggiano / celfie
  cfDNA cell type of origin estimation
  ☆34Updated 2 years ago
• VanLoo-lab / ASCAT.sc
  ☆24Updated last week