Alternatives and similar repositories for dx-toolkit

Users that are interested in dx-toolkit are comparing it to the libraries listed below

• CGATOxford / cgat
  Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps
  ☆124Updated 7 years ago
• CCDG / Pipeline-Standardization
  ☆82Updated 7 years ago
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆53Updated 5 years ago
• broadinstitute / mutect
  MuTect -- Accurate and sensitive cancer mutation detection
  ☆101Updated 2 years ago
• nunofonseca / irap
  integrated RNA-seq Analysis Pipeline
  ☆84Updated 6 years ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆114Updated 6 years ago
• thelovelab / tximport
  Transcript quantification import for modular pipelines
  ☆142Updated 2 months ago
• ncbi / ngs
  NGS Language Bindings
  ☆119Updated 2 years ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆118Updated last year
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆72Updated 5 years ago
• macarthur-lab / clinvar
  This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file…
  ☆128Updated 5 years ago
• ratschlab / spladder
  Tool for the detection and quantification of alternative splicing events from RNA-Seq data.
  ☆111Updated 4 months ago
• yuchaojiang / Canopy
  Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.
  ☆70Updated 4 years ago
• WGLab / PennCNV
  Copy number vaiation detection from SNP arrays
  ☆96Updated last year
• hartleys / QoRTs
  Quality of RNA-Seq Toolset
  ☆53Updated 6 years ago
• UMCUGenetics / MutationalPatterns
  R package for extracting and visualizing mutational patterns in base substitution catalogues
  ☆108Updated 3 years ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆98Updated 4 years ago
• konradjk / loftee
  ☆185Updated 2 years ago
• pgxcentre / genipe
  Genome-wide imputation pipeline
  ☆31Updated last year
• ewels / clusterflow
  A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.
  ☆98Updated 2 years ago
• ding-lab / CharGer
  Characterization of Germline variants
  ☆98Updated 3 years ago
• daler / metaseq
  Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data
  ☆87Updated 5 years ago
• mskcc / facets
  Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
  ☆156Updated 2 years ago
• johandahlberg / awesome-10x-genomics
  List of tools and resources related to the 10x Genomics GEMCode/Chromium system
  ☆85Updated 6 years ago
• broadinstitute / gtex-viz
  GTEx Visualizations
  ☆65Updated 4 years ago
• konradjk / exac_browser
  Browser for ExAC consortium data
  ☆106Updated 3 years ago
• ChristofferFlensburg / superFreq
  Analysis pipeline for cancer sequencing data
  ☆112Updated 7 months ago
• EGA-archive / ega-download-client
  A Python-based EGA download client
  ☆108Updated last year
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆122Updated 2 years ago