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Provides functions to have visualization and clean-up of enriched gene ontologies (GO) terms, protein complexes and pathways (obtained from multiple databases) using 'ConsensusPathDB' from gene set over-expression analysis. Performs clustering of pathway based on similarity of over-expressed gene sets and visualizations similar to Ingenuity Pathway Analysis (IPA) when up and down regulated genes are known. The methods are described in a paper currently submitted by Orecchioni et al, 2020 in Nanoscale.
| Version: | 1.0-3 |
| Depends: | ggplot2, igraph, devtools, ggrepel, grDevices, randomcoloR, R (≥ 4.0) |
| Published: | 2023-03-16 |
| DOI: | 10.32614/CRAN.package.func2vis |
| Author: | Raghvendra Mall [aut, cre] |
| Maintainer: | Raghvendra Mall <raghvendra5688 at gmail.com> |
| License: | GPL (≥ 3) |
| NeedsCompilation: | yes |
| In views: | Omics |
| CRAN checks: | func2vis results |
| Reference manual: | func2vis.pdf |
| Package source: | func2vis_1.0-3.tar.gz |
| Windows binaries: | r-devel: func2vis_1.0-3.zip, r-release: func2vis_1.0-3.zip, r-oldrel: func2vis_1.0-3.zip |
| macOS binaries: | r-release (arm64): func2vis_1.0-3.tgz, r-oldrel (arm64): func2vis_1.0-3.tgz, r-release (x86_64): func2vis_1.0-3.tgz, r-oldrel (x86_64): func2vis_1.0-3.tgz |
| Old sources: | func2vis archive |
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These binaries (installable software) and packages are in development.
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