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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. To capture the benefit of all three ontologies, I developed 'HTGM3D', a three-dimensional version of 'GoMiner'.
| Version: | 1.0 |
| Depends: | R (≥ 4.2.0) |
| Imports: | minimalistGODB, GoMiner, HTGM, HTGM2D, grDevices, stats, R2HTML, rgl, vprint, randomGODB, stringr |
| Suggests: | knitr, rmarkdown, testthat (≥ 3.0.0) |
| Published: | 2025-05-30 |
| DOI: | 10.32614/CRAN.package.HTGM3D |
| Author: | Barry Zeeberg [aut, cre] |
| Maintainer: | Barry Zeeberg <barryz2013 at gmail.com> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| NeedsCompilation: | no |
| CRAN checks: | HTGM3D results |
| Reference manual: | HTGM3D.pdf |
| Vignettes: |
Three Dimensional High Throughput GoMiner (HTGM3D) (source) |
| Package source: | HTGM3D_1.0.tar.gz |
| Windows binaries: | r-devel: HTGM3D_1.0.zip, r-release: HTGM3D_1.0.zip, r-oldrel: HTGM3D_1.0.zip |
| macOS binaries: | r-release (arm64): HTGM3D_1.0.tgz, r-oldrel (arm64): HTGM3D_1.0.tgz, r-release (x86_64): HTGM3D_1.0.tgz, r-oldrel (x86_64): HTGM3D_1.0.tgz |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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