Difference between revisions of "R Portal"

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(→‎What's inside: update installed packages)
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On the grid, R 2.11 and 2.12 are available; the gpu cluster has versions 2.12 and 2.13.
 
On the grid, R 2.11 and 2.12 are available; the gpu cluster has versions 2.12 and 2.13.
  
Extra packages installed: ''(none at the moment)''<br/>
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Packages installed on the grid: <tt>IRanges KEGG.db RColorBrewer RCurl RSQLite XML affy affyPLM affyQCReport affydata affyio annaffy annotate biomaRt bitops gcrma genefilter geneplotter hgu95av2.db limma marray multtest org.Hs.eg.db preprocessCore simpleaffy vsn xtable KernSmooth MASS Matrix base boot class cluster codetools datasets foreign grDevices graphics grid lattice methods mgcv nlme nnet rpart spatial splines stats stats4 survival tcltk tools utils</tt><br/>
Extra packages on the GPU cluster: <tt>Rcpp</tt>, <tt>Rgpu</tt><br/>
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Packages on the GPU cluster: <tt>bitops Rcpp rgpu rgputools snow base boot class cluster codetools datasets foreign graphics grDevices grid KernSmooth lattice MASS Matrix methods mgcv nlme nnet rpart spatial splines stats stats4 survival tcltk tools utils</tt><br/>
 
(you can still use <tt>[http://cran.r-project.org/doc/manuals/R-admin.html#installing-packages install.packages()]</tt> to install extra packages right now)
 
(you can still use <tt>[http://cran.r-project.org/doc/manuals/R-admin.html#installing-packages install.packages()]</tt> to install extra packages right now)

Revision as of 12:03, 1 March 2012

The upcoming BiG Grid R portal

Rlogo.jpg

To make using the grid easier, we're working a portal for users of the statistical programming language R. It's a web interface for your jobs, and a module for R. Plus some tools and language bindings to interact with the jobs.

As a bonus, you can also use it to run R on a GPU cluster.

The R portal is not a production service yet. We're currently looking for R users who want to help us to make it work smoothly in a real-world setting. If you're interested, please drop me a mail.

What's inside

The system is based on the Leiden Grid Intrastructure (LGI). It interacts with the grid using pilotjobs (read more).

On the grid, R 2.11 and 2.12 are available; the gpu cluster has versions 2.12 and 2.13.

Packages installed on the grid: IRanges KEGG.db RColorBrewer RCurl RSQLite XML affy affyPLM affyQCReport affydata affyio annaffy annotate biomaRt bitops gcrma genefilter geneplotter hgu95av2.db limma marray multtest org.Hs.eg.db preprocessCore simpleaffy vsn xtable KernSmooth MASS Matrix base boot class cluster codetools datasets foreign grDevices graphics grid lattice methods mgcv nlme nnet rpart spatial splines stats stats4 survival tcltk tools utils
Packages on the GPU cluster: bitops Rcpp rgpu rgputools snow base boot class cluster codetools datasets foreign graphics grDevices grid KernSmooth lattice MASS Matrix methods mgcv nlme nnet rpart spatial splines stats stats4 survival tcltk tools utils
(you can still use install.packages() to install extra packages right now)