[BioC] Is anyone developing an extensible Galaxy-like interface for Bioconductor?

Scott Markel smarkel at accelrys.com
Fri Aug 1 22:54:38 CEST 2008


SciTegic Enterprise Server and Pipeline Pilot offer an extensible
client-server data retrieval, filtering, analysis, and reporting
platform.  Pipeline Pilot comes with many toolkits called collections.
The Gene Expression Collection's core functionality is built on top of
BioConductor.  The R-Statistics collection can be easily extended to
add any desired additional BioConductor functionality.  The Professional
client has a drag and drop visual icon/data flow interface; the web
client can be configured to create different client interfaces.



Deanne Taylor wrote:
> Dear all:
> Iis anyone aware of  any projects creating an extensible platform that can act as an interface to Bioconductor that could be used to deliver Bioconductor methods to non-command-line-using users?
>  To save some replies: 
> * I am aware of limmaGUI and affylmGUI, but the tcl/tk interface is frustrating to some users who have difficulty installing tcl/tk independently while having R recognize it.  Macs and some *nix have been particularly problematic for some reasons.
> * I am also aware of CARMAweb, bioconductor packages and a few other basic R-web-interfaces, but I would like something more extensible outside of the R framework that could work both in R and in Python/Perl for example. Something more modular.
> *  I'm thinking something like Galaxy or Bioclipse. I realize Ross Lazarus is working on Rgenetics against Galaxy and Galaxy might be a good solution.
> If anyone is aware of other projects (beginning or ongoing or planned) in this area, I'd deeply appreciate getting pointers to them!
> Deanne

Scott Markel, Ph.D.
Principal Bioinformatics Architect  email:  smarkel at accelrys.com
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