[BioC] Reg: GSEA
mcarlson at fhcrc.org
Tue Apr 20 00:03:17 CEST 2010
Yes. You can definitely test KEGG terms. But be sure you have the very
latest version of the Category package. In the current release this
would be 2.12.1
On 04/19/2010 03:12 AM, Rohit Farmer wrote:
> Thanks Andreia ...
> This GOstats package will also work with KEGG database pathway data or
> i have to use another package and there is one more package i found
> that is GSEAbase ... so which one is better or can say easy to use and
> implement ...
> On 4/19/10, Andreia Fonseca <andreia.fonseca at gmail.com> wrote:
>> Dear Farmer,
>> you can use GOstats package.
>> On Mon, Apr 19, 2010 at 10:59 AM, Rohit Farmer
>> <rohit.farmer at gmail.com>wrote:
>>> Hello everyone ...
>>> I just did a moderate t statistics using limma package and found out a
>>> list of genes which are differentially expressed now i wan to go for
>>> gene set enrichment analysis using GO terms and pathway analysis ...
>>> so can anyone suggest me the bioconductor packages which i can use for
>>> the same ..
>>> Thanks and regards
>>> Rohit Farmer
>>> M.Tech Bioinformatics
>>> Department of Computational Biology and Bioinformatics
>>> Jacob School of Biengineering and Biotechnology
>>> Sam Higginbottom Institute of Agriculture, Technology and Sciences
>>> (Formerly known as Allahabad Agricultural Institute - Deemed University)
>>> Allahabad, UP, INDIA - 211 007
>>> Ph. No. 9839845093, 9415261403
>>> e-Mail rohit.farmer at gmail.com
>>> Blog http://rohitsspace.blogspot.com
>>> Bioconductor mailing list
>>> Bioconductor at stat.math.ethz.ch
>>> Search the archives:
>> Andreia J. Amaral
>> Unidade de Imunologia Clínica
>> Instituto de Medicina Molecular
>> Universidade de Lisboa
>> email: andreiaamaral at fm.ul.pt
>> andreia.fonseca at gmail.com
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