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A toolset for functional enrichment analysis and visualization, gene/protein/SNP identifier conversion and mapping orthologous genes across species via 'g:Profiler' (<https://biit.cs.ut.ee/gprofiler/>). The main tools are: (1) 'g:GOSt' - functional enrichment analysis and visualization of gene lists; (2) 'g:Convert' - gene/protein/transcript identifier conversion across various namespaces; (3) 'g:Orth' - orthology search across species; (4) 'g:SNPense' - mapping SNP rs identifiers to chromosome positions, genes and variant effects. This package is an R interface corresponding to the 2019 update of 'g:Profiler' and provides access to 'g:Profiler' for versions 'e94_eg41_p11' and higher. See the package 'gProfileR' for accessing older versions from the 'g:Profiler' toolset.
| Version: | 0.2.3 |
| Depends: | R (≥ 3.5) |
| Imports: | jsonlite, RCurl, ggplot2, plotly, tidyr (≥ 1.0.0), crosstalk, grDevices, gridExtra, grid, viridisLite, dplyr |
| Suggests: | knitr, rmarkdown, prettydoc |
| Published: | 2024-02-23 |
| DOI: | 10.32614/CRAN.package.gprofiler2 |
| Author: | Liis Kolberg, Uku Raudvere |
| Maintainer: | Liis Kolberg <liis.kolberg at ut.ee> |
| BugReports: | https://biit.cs.ut.ee/gprofiler/page/contact |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| NeedsCompilation: | no |
| Citation: | gprofiler2 citation info |
| In views: | Omics |
| CRAN checks: | gprofiler2 results |
| Reference manual: | gprofiler2.pdf |
| Vignettes: |
gprofiler2 |
| Package source: | gprofiler2_0.2.3.tar.gz |
| Windows binaries: | r-devel: gprofiler2_0.2.3.zip, r-release: gprofiler2_0.2.3.zip, r-oldrel: gprofiler2_0.2.3.zip |
| macOS binaries: | r-release (arm64): gprofiler2_0.2.3.tgz, r-oldrel (arm64): gprofiler2_0.2.3.tgz, r-release (x86_64): gprofiler2_0.2.3.tgz, r-oldrel (x86_64): gprofiler2_0.2.3.tgz |
| Old sources: | gprofiler2 archive |
| Reverse imports: | bulkAnalyseR, DFD, enrichViewNet, famat, GWENA, MultiRNAflow, orthogene, PRONE, RCAS, scMappR, UniprotR |
| Reverse suggests: | aPEAR, clustifyr, HPiP, knowYourCG, OmnipathR, rliger |
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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.