Alternatives and similar repositories for GEOquery

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

• bvieth / powsimR
  Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially ex…
  ☆107Updated 2 years ago
• wjawaid / enrichR
  An R interface to enrichR
  ☆93Updated 8 months ago
• stephenturner / annotables
  R data package for annotating/converting Gene IDs
  ☆166Updated 3 months ago
• csoneson / ARMOR
  Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
  ☆165Updated 3 weeks ago
• thelovelab / tximport
  Transcript quantification import for modular pipelines
  ☆141Updated last month
• slowkow / tftargets
  Human transcription factor target genes from 6 databases in convenient R format.
  ☆86Updated 7 years ago
• mxxdxxx / FirebrowseR
  An R client for broads firehose pipeline, providing TCGA data sets
  ☆61Updated 6 years ago
• Bioconductor / OrchestratingSingleCellAnalysis
  Content for the OSCA Book.
  ☆66Updated 2 years ago
• HumanCellAtlas / skylab
  Soon to be deprecated in favor of broadinstitute/warp github repo. Previously: Secondary analysis pipelines
  ☆48Updated 7 months ago
• drisso / bioc2016singlecell
  Bioconductor workshop: Analysis of single-cell RNA-seq data with R and Bioconductor
  ☆80Updated 8 years ago
• PoisonAlien / TCGAmutations
  R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE
  ☆98Updated last year
• cmap / cmapR
  Tools for manipulating annotated data matrices
  ☆92Updated 4 years ago
• mikegloudemans / gwas-download
  Easily download publicly available GWAS summary statistics.
  ☆76Updated last year
• hbc / bcbioRNASeq
  R package for bcbio RNA-seq analysis.
  ☆62Updated last year
• ShixiangWang / sigminer
  🌲 An easy-to-use and scalable toolkit for genomic alteration signature (a.k.a. mutational signature) analysis and visualization in R htt…
  ☆157Updated 2 months ago
• alanocallaghan / scater
  Clone of the Bioconductor repository for the scater package.
  ☆96Updated 7 months ago
• nunofonseca / irap
  integrated RNA-seq Analysis Pipeline
  ☆84Updated 6 years ago
• jokergoo / EnrichedHeatmap
  make enriched heatmap which visualizes the enrichment of genomic signals to specific target regions.
  ☆197Updated last year
• GSEA-MSigDB / GSEA_R
  Updated implementation of the GSEA-P R application for modern R distributions
  ☆97Updated 3 years ago
• jokergoo / simplifyEnrichment
  Simplify functional enrichment results
  ☆118Updated last year
• kdkorthauer / dmrseq
  R package for Inference of differentially methylated regions (DMRs) from bisulfite sequencing
  ☆61Updated 5 months ago
• srp33 / TCGA_RNASeq_Clinical
  ☆62Updated 5 years ago
• jdblischak / singleCellSeq
  Batch effects and the effective design of single-cell gene expression studies
  ☆104Updated 6 years ago
• hansenlab / minfi
  Devel repository for minfi
  ☆61Updated last year
• davismcc / archive-scater
  An archived version of the scater repository, see https://github.com/davismcc/scater for the active version.
  ☆64Updated 8 years ago
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆119Updated 7 years ago
• OSCA-source / OSCA
  The package wrapping the book, for deployment via the Bioconductor build system.
  ☆92Updated 11 months ago
• Bioconductor / CSAMA
  Course material for CSAMA: Statistical Data Analysis for Genome Scale Biology
  ☆94Updated last year
• Bioconductor / GenomicDataCommons
  Provide R access to the NCI Genomic Data Commons portal.
  ☆89Updated 5 months ago
• riazn / bms038_analysis
  Code and additional processed data for manuscript "Tumor and Microenvironment Evolution during Immunotherapy with Nivolumab"; see for man…
  ☆51Updated 7 years ago