Alternatives and similar repositories for pyclone-vi

Users that are interested in pyclone-vi are comparing it to the libraries listed below

• broadinstitute / RNA_MUTECT_1.0-1
  ☆38Updated 5 years ago
• ylab-hi / ScanNeo
  A pipeline for identifying indel derived neoantigens using RNA-Seq data
  ☆30Updated 3 years ago
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆65Updated 5 years ago
• broadinstitute / PhylogicNDT
  ☆83Updated 9 months ago
• WGLab / CancerVar
  Clinical interpretation of somatic mutations in cancer
  ☆50Updated 11 months ago
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆86Updated last year
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆33Updated 5 years ago
• raphael-group / decifer
  DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…
  ☆22Updated last year
• cancer-genomics / reproduce_lucas_wflow
  ☆31Updated last year
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆96Updated last year
• TRON-Bioinformatics / EasyFuse
  EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.
  ☆64Updated 2 weeks ago
• ernstlab / full_stack_ChromHMM_annotations
  Data of genome annotation from full-stack ChromHMM model trained with 1032 datasets from 127 reference epigenomes
  ☆38Updated last year
• mcmero / SVclone
  A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.
  ☆42Updated 5 months ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…
  ☆77Updated this week
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆44Updated 4 years ago
• sinanugur / cellsnake
  Cellsnake tool main repo
  ☆36Updated last year
• TRON-Bioinformatics / seq2HLA
  In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq f…
  ☆50Updated 5 months ago
• KCCG / rageseq
  RAGE-seq scripts
  ☆18Updated 4 years ago
• PCAWG-11 / Evolution
  Code accompanying The Evolutionary history of 2,658 cancers
  ☆46Updated 4 years ago
• parklab / SigMA
  Mutational signature analysis for low statistics SNV data
  ☆64Updated last year
• HorvathLab / NGS
  Next-Gen Sequencing tools from the Horvath Lab
  ☆45Updated last month
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆32Updated 10 months ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• YeoLab / outrigger
  Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data
  ☆67Updated 5 years ago
• McGranahanLab / TcellExTRECT
  ☆48Updated last year
• nloyfer / meth_atlas
  ☆53Updated 3 years ago
• ShixiangWang / DoAbsolute
  Automate Absolute Copy Number Calling using 'ABSOLUTE' package
  ☆41Updated 2 years ago
• navinlabcode / copykit
  Toolkit for single-cell copy number analysis
  ☆29Updated last month
• icbi-lab / nextNEOpi
  nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
  ☆83Updated 8 months ago
• parklab / ShatterSeek
  ☆75Updated 2 years ago