[BioC] hello!

Naomi Altman naomi at stat.psu.edu
Wed Jul 15 17:21:46 CEST 2009


It is not so easy to use vennCounts unless you have an incidence 
matrix with the union of all the elements in the rows
the sets in the columns, and a "1'" in position (i,j) if element i is 
in set j.  vennCounts is meant to be used with decideTests.

--Naomi

At 02:15 AM 7/15/2009, amit mandal wrote:
>hello amrit,
>     You can make Venn diagram in R using the function 'vennCounts' in the
>"limma" package (for microarray data analysis).
>    I haven't used the function so unable to give you any worked out example.
>Nevertheless, if you are in a jiffy then you visit -
>   http://bioinfogp.cnb.csic.es/tools/venny/index.html
>
>Online venn diagram utility and works good. Since presently the gene list is
>small, you can as well use this.
>
>
>cheers..
>amit
>
>On Wed, Jul 15, 2009 at 9:56 AM, amrit karki <akarki001 at yahoo.com> wrote:
>
> > Dear Ting-Yuan
> > Thank you so much for your help. I still have one
> > more question for you. I am trying to construct venn diagram in
> > r-programming but could not success. For example: i have 100 genes in
> > set A only, 50 genes in set B only and there are 25 common genes in
> > both set (in intersection). So, would you mind to suggest how it is
> > possible to construct venn diagram in r-programming.
> > Thank you.
> > With best regards.
> > Amrit Karki
> >
> >
> >
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>
>
>--
>---------------------------------------------------------------
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>from the thief.
>- Shakespeare
>---------------------------------------------------------------
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Naomi S. Altman                                814-865-3791 (voice)
Associate Professor
Dept. of Statistics                              814-863-7114 (fax)
Penn State University                         814-865-1348 (Statistics)
University Park, PA 16802-2111



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