Alternatives and similar repositories for SigProfilerMatrixGenerator

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

• AlexandrovLab / SigProfilerAssignment
  Assignment of known mutational signatures to individual samples and individual somatic mutations
  ☆56Updated last week
• AlexandrovLab / SigProfilerExtractor
  SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…
  ☆160Updated 3 weeks ago
• broadinstitute / PhylogicNDT
  ☆73Updated 2 months ago
• AlexandrovLab / SigProfilerPlotting
  SigProfilerPlotting provides a standard tool for displaying all types of mutational signatures as well as all types of mutational pattern…
  ☆48Updated 3 months ago
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆106Updated last year
• sztup / scarHRD
  ☆116Updated last year
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆72Updated 4 years ago
• TrinityCTAT / Trinity_CTAT
  ☆117Updated last year
• VanLoo-lab / ascat
  ASCAT R package
  ☆183Updated 3 months ago
• Wedge-lab / battenberg
  Battenberg R package for subclonal copynumber estimation
  ☆88Updated 3 weeks ago
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆132Updated last year
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 4 years ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆141Updated 2 years ago
• virajbdeshpande / AmpliconArchitect
  AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …
  ☆147Updated last year
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 7 months ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆94Updated 4 years ago
• Nik-Zainal-Group / signature.tools.lib
  R package containing useful functions for mutational signature analysis
  ☆82Updated this week
• epi2me-labs / wf-single-cell
  ☆92Updated this week
• gerstung-lab / MutationTimeR
  An R package to time somatic mutations
  ☆62Updated 4 years ago
• parklab / ShatterSeek
  ☆69Updated last year
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆136Updated 2 months ago
• icbi-lab / nextNEOpi
  nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
  ☆73Updated 3 weeks ago
• AmpliconSuite / AmpliconSuite-pipeline
  A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …
  ☆67Updated 2 weeks ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆110Updated 2 years ago
• gatk-workflows / gatk4-exome-analysis-pipeline
  This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…
  ☆53Updated 4 years ago
• hdng / clonevol
  Inferring and visualizing clonal evolution in multi-sample cancer sequencing
  ☆147Updated 4 years ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆124Updated 2 years ago
• ncbi / TPMCalculator
  TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
  ☆130Updated last year
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆94Updated 10 months ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆141Updated 2 years ago