Alternatives and similar repositories for MutationalPatterns:

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

• hbc / bcbioRNASeq
  R package for bcbio RNA-seq analysis.
  ☆62Updated 7 months ago
• guigolab / ggsashimi
  Command-line tool for the visualization of splicing events across multiple samples
  ☆128Updated 9 months ago
• csoneson / ARMOR
  Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
  ☆162Updated 4 months ago
• hdng / clonevol
  Inferring and visualizing clonal evolution in multi-sample cancer sequencing
  ☆147Updated 4 years ago
• dzhang32 / ggtranscript
  Visualizing transcript structure and annotation using ggplot2
  ☆154Updated 7 months ago
• mskcc / facets
  Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
  ☆150Updated last year
• ChristofferFlensburg / superFreq
  Analysis pipeline for cancer sequencing data
  ☆110Updated 9 months ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆141Updated last year
• Nik-Zainal-Group / signature.tools.lib
  R package containing useful functions for mutational signature analysis
  ☆81Updated this week
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 3 years ago
• Zhong-Lab-UCSD / Genomic-Interactive-Visualization-Engine
  Genomic Interactive Visualization Engine
  ☆145Updated 2 years ago
• ncbi / TPMCalculator
  TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
  ☆129Updated 9 months ago
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆134Updated 2 weeks ago
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated 5 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆112Updated 9 months ago
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆104Updated 11 months ago
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆117Updated last year
• VanLoo-lab / ascat
  ASCAT R package
  ☆179Updated last month
• im3sanger / dndscv
  dN/dS methods to quantify selection in cancer and somatic evolution
  ☆220Updated 3 weeks ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 5 months ago
• eQTL-Catalogue / qtlmap
  Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
  ☆47Updated 3 weeks ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆52Updated 4 years ago
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆70Updated 4 years ago
• thelovelab / tximport
  Transcript quantification import for modular pipelines
  ☆138Updated last year
• ding-lab / CharGer
  Characterization of Germline variants
  ☆98Updated 3 years ago
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆120Updated 6 years ago
• BIMSBbioinfo / genomation
  R package for genomic feature analysis and visualization
  ☆76Updated this week
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 2 years ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆109Updated 6 years ago
• parklab / ShatterSeek
  ☆68Updated last year