start:software:topical:lifesciences:r_bio [MogonWiki]

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====== R and Bioconductor ======

The HPC group supports Bioconductor by providing it in modules:

''bio/R-bundle-Bioconductor''

<WRAP center round info 90%>
Please consider the [[development:scripting_languages:r|general notes on R]]. Particularly the notes on //optimization// and //parallelization//.

In case you require any assistance, [[hpc@uni-mainz.de|do not hesitate to approach us]]. Any feedback on usage, which can be documented and help others is much appreciated. 
</WRAP>

===== Installed Libraries =====

The number of installed libraries will vary over time. To see the installed Bioconductor libraries of a particular module, start up R and inquire with:

<code Rsplus>
library(sessioninfo)
library(dplyr)

# list all installed packages
pkgs <- installed.packages()[,'Package']

## combine and filter for BioC only
bioc_pkgs <- tibble(pkgs, source) %>% filter(source == "Bioconductor")
options(tibble.print_max = Inf)
bioc_pkgs
</code>