Provides a set of functions to perform pathway analysis and meta-analysis from multiple gene expression datasets, as well as visualization of the results. This package wraps functionality from the following packages: Ritchie et al. (2015) <doi:10.1093/nar/gkv007>, Love et al. (2014) <doi:10.1186/s13059-014-0550-8>, Robinson et al. (2010) <doi:10.1093/bioinformatics/btp616>, Korotkevich et al. (2016) <arxiv:10.1101/060012>, Efron et al. (2015) <https://CRAN.R-project.org/package=GSA>, and Gu et al. (2012) <https://CRAN.R-project.org/package=CePa>.
Version: 0.2.6 Depends: R (≥ 4.0), tidyr, dplyr, ggplot2, utils, stats Imports: AnnotationDbi, SummarizedExperiment, BiocManager, Biobase, DESeq2, GEOquery, edgeR, limma, stringr (≥ 1.5.0), ggnewscale, ggrepel, graph, httr, rlang, ggpattern, scales, RobustRankAggreg, methods, jsonlite, IRdisplay Suggests: knitr, rmarkdown, markdown, testthat (≥ 3.0.0), ROntoTools, fgsea, GSA, CePa, meta, png, ggvenn, RCurl, XML, S4Vectors, hgu133plus2.db, org.Hs.eg.db, pd.hg.u133.plus.2, oligo Published: 2025-04-30 DOI: 10.32614/CRAN.package.RCPA Author: Ha Nguyen [aut, cre], Phi Bya [aut], Zeynab Maghsoudi [aut], Tin Nguyen [fnd] Maintainer: Ha Nguyen <hvn0006 at auburn.edu> BugReports: https://github.com/tinnlab/RCPA/issues License: GPL-3 NeedsCompilation: no Citation: RCPA citation info CRAN checks: RCPA results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=RCPA to link to this page.
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