gprofiler2: Interface to the 'g:Profiler' Toolset
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 |
Documentation:
Downloads:
Reverse dependencies:
| Reverse imports: |
bulkAnalyseR, ClustAssess, DFD, enrichViewNet, famat, GWENA, MultiRNAflow, orthogene, PRONE, RCAS, scMappR, UniprotR |
| Reverse suggests: |
clustifyr, HPiP, knowYourCG, OmnipathR, rliger |
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