Package: DGEobj Type: Package Title: Differential Gene Expression (DGE) Analysis Results Data Object Version: 1.1.2 Description: Provides a flexible container to manage and annotate Differential Gene Expression (DGE) analysis results (Smythe et. al (2015) ). The DGEobj has data slots for row (gene), col (samples), assays (matrix n-rows by m-samples dimensions) and metadata (not keyed to row, col, or assays). A set of accessory functions to deposit, query and retrieve subsets of a data workflow has been provided. Attributes are used to capture metadata such as species and gene model, including reproducibility information such that a 3rd party can access a DGEobj history to see how each data object was created or modified. Since the DGEobj is customizable and extensible it is not limited to RNA-seq analysis types of workflows -- it can accommodate nearly any data analysis workflow that starts from a matrix of assays (rows) by samples (columns). Authors@R: c(person("John", "Thompson", role = "aut", email = "jrt@thompsonclan.org"), person("Connie", "Brett", role = c("aut", "cre"), email = "connie@aggregate-genius.com"), person("Isaac", "Neuhaus", role = "aut", email = "isaac.neuhaus@bms.com"), person("Ryan", "Thompson", role = "aut", email = "rct@thompsonclan.org")) Depends: R (>= 3.5.0) License: GPL-3 Language: en-US Encoding: UTF-8 Imports: assertthat, magrittr, stringr, utils Suggests: biomaRt, conflicted, dplyr, edgeR, GenomicRanges, glue, knitr, rmarkdown, testthat biocViews: RoxygenNote: 7.1.2 VignetteBuilder: knitr Config/pak/sysreqs: libicu-dev Repository: https://cb4ds.r-universe.dev Date/Publication: 2025-01-29 21:49:15 UTC RemoteUrl: https://github.com/cb4ds/dgeobj RemoteRef: HEAD RemoteSha: f9ea01bfe87c2e16378eeae14d575aaf53166e80 NeedsCompilation: no Packaged: 2026-07-05 09:56:45 UTC; root Author: John Thompson [aut], Connie Brett [aut, cre], Isaac Neuhaus [aut], Ryan Thompson [aut] Maintainer: Connie Brett