Software

R

Downloads are from CRAN/Bioconductor/anaconda, updated on 2022-05-10.

Visualization

Data analysis

  • simplifyEnrichment: Simplify functional enrichment results. Bioc GitHub stars
  • cola: A Framework for Consensus Partitioning. Bioc GitHub stars
  • rGREAT: Client of GREAT analysis. Bioc GitHub stars
  • CePa: centrality-based pathway enrichment. CRAN
  • GeneSummary: RefSeq Gene Summaries. Bioc GitHub stars

Other tools

  • pkgndep: Check the Heaviness of Package Dependencies. CRAN GitHub stars
  • bsub: Submitter and monitor of LSF cluster. CRAN GitHub stars
  • GetoptLong: wrapper of the Perl module Getopt::Long, also provides a simple variable interpolation in R. CRAN GitHub stars
  • GlobalOptions: setting global options in R. CRAN GitHub stars

Perl

Books

Package status

Package GitHub Actions CRAN check bioc-devel bioc-release GitHub issues
circlize R-CMD-check - - GitHub issues
spiralize R-CMD-check - - GitHub issues
GetoptLong R-CMD-check - - GitHub issues
GlobalOptions R-CMD-check - - GitHub issues
bsub R-CMD-check - - GitHub issues
pkgndep R-CMD-check - - GitHub issues
simplifyEnrichment R-CMD-check - GitHub issues
ComplexHeatmap R-CMD-check GitHub issues
InteractiveComplexHeatmap R-CMD-check - GitHub issues
EnrichedHeatmap R-CMD-check - GitHub issues
HilbertCurve R-CMD-check - GitHub issues
gtrellis R-CMD-check - GitHub issues
rGREAT R-CMD-check - GitHub issues
cola R-CMD-check - GitHub issues
GeneSummary R-CMD-check - - - GitHub issues