[BioC] regarding web interface to R coding
Michael.Dondrup at bccs.uib.no
Tue Sep 8 13:40:09 CEST 2009
The choice of the appropriate language to build a user interface
- your skills in the programming languages
- your requirements, e.g. full blown AJAX web 2.0 with virtual desktop
in the browser behavior vs. single CGI page
- availability of libraries for user-interfaces meeting these
I don't know about the first two points, maybe you should figure that
but the UI doesn't come for free with any language solution and its
might outweigh the implementing of the analysis.
IMHO there are much better languages with support for building web-
interfaces than R. The CGIwithR package could
still work, but it has not been updated since 2005, I haven't tried
it. Maybe the RApache package suggested by Steve is worth a try, too.
If using a different prog. language you always need a sort of language
binding such that you can call R functions in Perl, Python or Java
(e.g. RSPerl, rJava, RPy, or transfer via tmpfiles, system commands),
that doesn't give you the UI magically. Building small web-apps in
Perl is quite straight forward though, for bigger ones I would
(nowadays) try something else.
Am 08.09.2009 um 06:21 schrieb ankhee dutta:
> Thanks for replying Michael but sorry to say that i don't have much
> knowledge about java and its applications but you were also
> suggesting to
> use RSPerl, so will that solve my purpose of making web interface to
> the R
> coding, otherwise can i use CGIwithR package for the purpose, how is
> it and
> is this package common in use?
> Please do reply.
> On Mon, Sep 7, 2009 at 7:01 PM, Michael Dondrup <Michael.Dondrup at bccs.uib.no
>> Hi Ankhee,
>> depends mainly on your favorite host language I think. Among other
>> suggestions (RPy), I think one of the most commonly used solution is
>> Java and the rJava package. That can be installed from CRAN.
>> That contains JRI so you can run R code from Java (and vice versa),
>> I know
>> some people that use rJava, and I do, it has little documentation but
>> otherwise it works fine, and I think the Eclipse R plugin uses it
>> too. Then
>> you could build your web UI in Java using eg. JSF, Echo2, or
>> If you like perl you might try RSPerl http://www.omegahat.org/
>> RSPerl/ or
>> try a patched version
>> where we have tried solve some issues. That worked for me at least
>> on a
>> variety of systems. But maybe noone else is using that.
>> I don't like the "write script to temporary file and pass around
>> tables in
>> textfiles" approach too much, I thinks it's not a real clean and
>> not very
>> efficient approach. But that's only my 50cent ;)
>> Am 07.09.2009 um 12:24 schrieb ankhee dutta:
>> hi all,
>>> here i have done some coding in R and want a web interface which can
>>> the R coding after taking user's query (who don't have knowledge
>>> of R) in
>>> any format. Can you suggest some language or software made for this
>>> and is used commonly.
>>> Any kind of help will be appreciable.
>>> Ankhee Dutta
>>> project trainee,
>>> JNU,New Delhi-67
>>> [[alternative HTML version deleted]]
>>> Bioconductor mailing list
>>> Bioconductor at stat.math.ethz.ch
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> Ankhee Dutta
> project trainee,
> JNU,New Delhi-67
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Michael Dondrup, Ph.D.
Bergen Center for Computational Science
Computational Biology Unit
Unifob AS - Thormøhlensgate 55, N-5008 Bergen, Norway
Phone: +47 55584029 Fax: +47 55584295
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