[RStudio][rstudio] is a powerful and user-friendly platform for developing and performing R based data analysis.
Coupled with [R Markdown][https://rmarkdown.rstudio.com/], one can easily generate visually rich reports that are one of, if not the, most used feature by the R community at EMBL to communicate results.
Coupled with [R Markdown][rmarkdown], one can easily generate visually rich reports that are one of, if not the, most used feature by the R community at EMBL to communicate results.
When the popular [GBCS][gbcs][RStudio server][embl-rstudio] backed by the [large `seneca` server][seneca] is too busy, or if you need a convenient way to generate R Markdown reports in parallel or as part of elaborate pipelines,
you can use the following script:
...
...
@@ -43,14 +43,17 @@ and build or knit R Markdown reports without RStudio.
To use the above command with the EMBL cluster, don't forget to load the appropriate R `module` (e.g. `module add R-bundle-Bioconductor-GBCS/3.11-foss-2020a-R-4.0.0`) beforehand.
If you see errors related to `X11 display`, try adding `options(bitmapType='cairo')` to your script or `~/.Rprofile`, as described in the [GBCS wiki][cairo].
Happy reporting!
Renato
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