Package: perturbMatchData Title: Reference Perturbation Signatures from GEO RNA-seq Experiments Version: 0.99.0 Authors@R: c( person( "Jamie", "Soul", email = "jamie.soul@liverpool.ac.uk", role = c("aut", "cre"), comment = c(ORCID = "0000-0003-2255-6459") ), person("Versus Arthritis", role = "fnd") ) Description: Provides the reference perturbation expression signatures used by the perturbMatch package, which ranks the single-gene perturbations whose expression response most resembles a query signature. Each reference signature summarises the differential expression observed after a single-gene perturbation (knockdown, knockout or overexpression) in a human RNA-seq experiment deposited in the Gene Expression Omnibus. Signatures are summarised either by the characteristic direction method or by limma, each with and without surrogate variable analysis batch correction, giving four datasets served as HDF5-backed SummarizedExperiment objects. License: MIT + file LICENSE URL: https://github.com/soulj/perturbMatchData BugReports: https://github.com/soulj/perturbMatchData/issues Encoding: UTF-8 biocViews: ExperimentHub, ExperimentData, ExpressionData, RNASeqData, SequencingData, Homo_sapiens_Data, GEO Depends: R (>= 4.5.0) Imports: ExperimentHub, HDF5Array, S4Vectors, SummarizedExperiment Suggests: BiocStyle, curl, knitr, rmarkdown, testthat VignetteBuilder: knitr Config/testthat/edition: 3 Roxygen: list(markdown = TRUE) RoxygenNote: 7.3.2 Config/pak/sysreqs: libicu-dev libpng-dev libssl-dev zlib1g-dev Repository: https://biocstaging.r-universe.dev Date/Publication: 2026-08-07 10:43:02 UTC RemoteUrl: https://github.com/BiocStaging/perturbMatchData RemoteRef: HEAD RemoteSha: 02b61aa9c7638cccb73e3ddef512635f7e382f3f NeedsCompilation: no Packaged: 2026-09-21 11:34:54 UTC; root Author: Jamie Soul [aut, cre] (ORCID: ), Versus Arthritis [fnd] Maintainer: Jamie Soul