augere.gsea
Automatic Generation of Gene Set Enrichment Analyses
Bioconductor version: 3.24 · Package version: 0.99.1
Implements pipelines for generating gene set enrichment analysis reports in the augere framework. This includes various competitive and self-contained gene sets from a variety of Bioconductor packages. Each pipeline function generates a self-contained Rmarkdown report with all of the steps required to reproduce the gene set enrichment analysis.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("augere.gsea")Details
| Maintainer | Aaron Lun <infinite.monkeys.with.keyboards@gmail.com> |
| Author | Aaron Lun [cre, aut] (ORCID: <https://orcid.org/0000-0002-3564-4813>) |
| License | MIT + file LICENSE |
| URL | https://github.com/augere-bioinfo/augere.gsea |
| Bug Reports | https://github.com/augere-bioinfo/augere.gsea/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | GeneSetEnrichment, ReportWriting, Software, WorkflowManagement |
| Package Short Url | https://bioconductor.org/packages/augere.gsea/ |
Citation
From within R, enter citation("augere.gsea"):
Aaron Lun. augere.gsea: Automatic Generation of Gene Set Enrichment Analyses. doi:10.18129/B9.bioc.augere.gsea, R package version 0.99.1, https://bioconductor.org/packages/augere.gsea.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | augere.gsea_0.99.1.tar.gz |
| Windows binary (x86_64) | augere.gsea_0.99.1.zip |
| macOS binary (arm64) | augere.gsea_0.99.1.tgz |
| macOS binary (x86_64) | augere.gsea_0.99.1.tgz |
Dependencies
Imports: stats, limma, S4Vectors, IRanges, augere.core, augere.de
Suggests: testthat, knitr, rmarkdown, BiocStyle, airway, goseq, fgsea, SummarizedExperiment, org.Hs.eg.db, GO.db