Alternatives and similar repositories for battenberg

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

• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆72Updated 4 years ago
• parklab / ShatterSeek
  ☆72Updated 2 years ago
• FunGeST / Palimpsest
  An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
  ☆71Updated last year
• dariober / cnv_facets
  Somatic copy variant caller (CNV) for next generation sequencing
  ☆73Updated last year
• broadinstitute / PhylogicNDT
  ☆77Updated 4 months ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 4 years ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆53Updated 4 years ago
• hartwigmedical / pipeline5
  ☆21Updated this week
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• TrinityCTAT / ctat-mutations
  Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19
  ☆77Updated last year
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆62Updated 4 years ago
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆109Updated last year
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆29Updated 7 months ago
• raphael-group / decifer
  DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…
  ☆21Updated last year
• PapenfussLab / StructuralVariantAnnotation
  R package designed to simplify structural variant analysis
  ☆73Updated 3 years ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 7 years ago
• Nik-Zainal-Group / signature.tools.lib
  R package containing useful functions for mutational signature analysis
  ☆84Updated last week
• getzlab / deTiN
  DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…
  ☆51Updated 3 years ago
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆61Updated last month
• AlexandrovLab / SigProfilerMatrixGenerator
  SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…
  ☆111Updated last month
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆122Updated last year
• sztup / scarHRD
  ☆116Updated 2 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• kundajelab / phantompeakqualtools
  This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to…
  ☆60Updated 5 years ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆99Updated 10 months ago
• freeseek / mocha
  MOsaic CHromosomal Alterations (MoChA) caller
  ☆87Updated 3 weeks 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
• CGATOxford / CGATPipelines
  Collection of CGAT NGS Pipelines
  ☆43Updated 6 years ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆116Updated last year
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆51Updated last year