Package: HTGM4D
Version: 1.0
Date: 2026-04-29
Title: Four Dimensional High Throughput 'GoMiner'
Authors@R: c(
          person("Barry", "Zeeberg", email = "barryz2013@gmail.com",
                role = c("aut", "cre")))
Maintainer: Barry Zeeberg <barryz2013@gmail.com>
Author: Barry Zeeberg [aut, cre]
Depends: R (>= 4.2.0)
Imports: minimalistGODB, GoMiner, HTGM, HTGM2D, grDevices, stats,
        gplots, vprint, randomGODB, HGNChelper, png, magick, svglite,
        utils, graphics
LazyData: true
LazyDataCompression: xz
Description: The Gene Ontology (GO) Consortium <https://geneontology.org/> organizes genes
  into hierarchical categories based on biological process (BP), molecular function (MF) and
  cellular component (CC, i.e., subcellular localization). Tools such as 'GoMiner' (see Zeeberg, B.R.,
  Feng, W., Wang, G. et al. (2003) <doi:10.1186/gb-2003-4-4-r28>) can leverage GO to perform
  ontological analysis of microarray and proteomics studies, typically generating a list of
  significant functional categories. Microarray studies are usually analyzed with BP, whereas
  proteomics researchers often prefer CC. To capture the benefit of both of those ontologies,
  I now present an enhancement of the existing two-dimensional version of 'High-Throughput GoMiner' ('HTGM2D'),
  which is called 'HTGM4D'. The original 'HTGM2D' is augmented by adding two instances of the original
  'GoMiner' genes versus categories heatmaps, aligned with the categories axes of the 'HTGM2D' heatmap.
License: GPL (>= 2)
Encoding: UTF-8
VignetteBuilder: knitr
Suggests: knitr, rmarkdown, testthat (>= 3.0.0)
RoxygenNote: 7.3.3
Config/testthat/edition: 3
NeedsCompilation: no
Packaged: 2026-04-29 14:47:32 UTC; barryzeeberg
Repository: CRAN
Date/Publication: 2026-05-02 09:50:08 UTC
Built: R 4.5.3; ; 2026-06-08 03:57:55 UTC; windows
