Alternatives and similar repositories for Palimpsest:

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

• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆60Updated 4 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 5 years ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• Wedge-lab / battenberg
  Battenberg R package for subclonal copynumber estimation
  ☆84Updated this week
• databio / pepatac
  A modular, containerized pipeline for ATAC-seq data processing
  ☆54Updated this week
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 4 years ago
• Nik-Zainal-Group / signature.tools.lib
  R package containing useful functions for mutational signature analysis
  ☆80Updated this week
• broadinstitute / gistic2
  Genomic Identification of Significant Targets in Cancer (GISTIC), version 2
  ☆49Updated 2 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆39Updated last year
• Bioconductor / copy-number-analysis
  Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis
  ☆21Updated last year
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 4 months ago
• pdiakumis / rock
  Rocking R at UMCCR
  ☆9Updated 4 years ago
• parklab / SigMA
  Mutational signature analysis for low statistics SNV data
  ☆63Updated 6 months ago
• broadinstitute / RNA_MUTECT_1.0-1
  ☆37Updated 4 years ago
• ding-lab / PanCanAtlasGermline
  ☆43Updated 6 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆27Updated this week
• mskcc / facets-suite
  Utility functions for FACETS
  ☆34Updated 10 months ago
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆70Updated 4 years ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆96Updated 3 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆26Updated 2 years ago
• ParkerLab / ataqv
  A toolkit for QC and visualization of ATAC-seq results.
  ☆67Updated last month
• dariober / cnv_facets
  Somatic copy variant caller (CNV) for next generation sequencing
  ☆70Updated 5 months ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆43Updated 3 years ago
• ShixiangWang / DoAbsolute
  Automate Absolute Copy Number Calling using 'ABSOLUTE' package
  ☆39Updated last year
• raphael-group / decifer
  DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…
  ☆20Updated 8 months ago
• ENCODE-DCC / dna-me-pipeline
  DCC/DAC methylation pipeline source
  ☆55Updated 4 years ago
• vivekbhr / Subread_to_DEXSeq
  Scripts to import your FeatureCounts output into DEXSeq
  ☆32Updated 6 years ago
• TRON-Bioinformatics / EasyFuse
  EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.
  ☆56Updated 2 months ago
• gxiaolab / REDITs
  RNA editing tests
  ☆16Updated 4 years ago
• broadinstitute / PhylogicNDT
  ☆71Updated 9 months ago