Hi,

Yes I've read the vignette, and proceeded with entrez ids but I have
troubles with sorting them by pvalue so the plot is messy not showing what
I want. Since I've already obtained some GO ids with goseq, I could use
these instead of entrez ids e.g.

MF <- basicProfile (MyGoIDs[1:100], onto="MF", level=2,
orgPackage="SOME.db")

thus decided to ask



On Wed, Oct 10, 2012 at 5:27 PM, Steve Lianoglou <
mailinglist.honeypot@gmail.com> wrote:

> Hi,
>
> On Wed, Oct 10, 2012 at 11:21 AM, Michael [guest]
> <guest@bioconductor.org> wrote:
> >
> > Hi,
> >
> > I'm trying to make nice comparison of GO profiles for three samples.
> > How can do this with goProfiles, I already have GO terms and I can
> easily do the profiles using entrez ids doesn't work with GO.
> > I would appreciate for help.
>
> Did you read the vignette?
>
>
> http://bioconductor.org/packages/2.11/bioc/vignettes/goProfiles/inst/doc/goProfiles.pdf
>
> It seems to show you how to do that ... you'll have to tell us what
> you've tried, and why the examples in the vignette don't work for you
> if you want some help. Without that, we have no idea where to even
> begin to try to help.
>
> -steve
>
> --
> Steve Lianoglou
> Graduate Student: Computational Systems Biology
>  | Memorial Sloan-Kettering Cancer Center
>  | Weill Medical College of Cornell University
> Contact Info: http://cbio.mskcc.org/~lianos/contact
>

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