Re: [R] .gct file

From: Marc Schwartz (via MN) <mschwartz_at_mn.rr.com>
Date: Wed 20 Jul 2005 - 03:06:36 EST

On Tue, 2005-07-19 at 12:28 -0400, Duncan Murdoch wrote:
> On 7/19/2005 12:10 PM, mark salsburg wrote:
> > I have two files to compare, one is a regular txt file that I can read
> > in no prob.
> >
> > The other is a .gct file (How do I read in this one?)
> >
> > I tried a simple
> >
> > read.table("data.gct", header = T)
> >
> > How do you suggest reading in this file??
> >
>
> .gct is not a standard filename extension. You need to know what is in
> that file. Where did you get it? What program created it?
>
> Chances are the easiest thing to do is to get the program that created
> it to export in a well known format, e.g. .csv.
>
> Duncan Murdoch

A quick Google search would suggest "Gene Cluster Text" file:

http://www.broad.mit.edu/cancer/software/genepattern/tutorial/gp_tutorial_fileformats.html#gct

produced by Gene Pattern:

http://www.broad.mit.edu/cancer/software/genepattern/

If correct, I would point Mark to the Bioconductor folks for more information and assistance:

http://www.bioconductor.org/

HTH, Marc Schwartz



R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Received on Wed Jul 20 03:10:36 2005

This archive was generated by hypermail 2.1.8 : Fri 03 Mar 2006 - 03:33:48 EST