Alternatives and similar repositories for MutationalPatterns

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

• ChristofferFlensburg / superFreq
  Analysis pipeline for cancer sequencing data
  ☆110Updated 4 months ago
• hbc / bcbioRNASeq
  R package for bcbio RNA-seq analysis.
  ☆62Updated 11 months ago
• thelovelab / tximport
  Transcript quantification import for modular pipelines
  ☆141Updated last week
• mskcc / facets
  Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
  ☆149Updated 2 years ago
• guigolab / ggsashimi
  Command-line tool for the visualization of splicing events across multiple samples
  ☆130Updated last year
• hdng / clonevol
  Inferring and visualizing clonal evolution in multi-sample cancer sequencing
  ☆147Updated 4 years ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 4 years ago
• BIMSBbioinfo / genomation
  R package for genomic feature analysis and visualization
  ☆79Updated 4 months ago
• slowkow / snakefiles
  Snakefiles for common RNA-seq data analysis workflows (STAR and Kallisto).
  ☆93Updated 8 years ago
• kdkorthauer / dmrseq
  R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing
  ☆61Updated 3 months ago
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆122Updated last year
• csoneson / ARMOR
  Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
  ☆165Updated 8 months ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆143Updated 2 years ago
• dzhang32 / ggtranscript
  Visualizing transcript structure and annotation using ggplot2
  ☆158Updated last year
• chrisamiller / fishplot
  Create timecourse "fish plots" that show changes in the clonal architecture of tumors
  ☆169Updated last year
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆119Updated 7 years ago
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆72Updated 4 years ago
• PMBio / peer
  A factor analysis package
  ☆100Updated 13 years ago
• thelovelab / rnaseqGene
  RNA-seq workflow: exploratory analysis and differential expression
  ☆78Updated last year
• saketkc / rna-seq-snakemake
  Snakemake based pipeline for RNA-Seq analysis
  ☆31Updated 6 years ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆99Updated 9 months ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆114Updated 6 years ago
• zhanxw / rvtests
  Rare variant test software for next generation sequencing data
  ☆140Updated 3 years ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆53Updated 4 years ago
• quinlan-lab / sllobs-biostats
  ☆72Updated 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…
  ☆59Updated 5 years ago
• stephenturner / qqman
  An R package for creating Q-Q and manhattan plots from GWAS results
  ☆169Updated last year
• Zhong-Lab-UCSD / Genomic-Interactive-Visualization-Engine
  Genomic Interactive Visualization Engine
  ☆145Updated 2 years ago
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆138Updated 4 months ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆106Updated 4 years ago