[BioC] Searching for data in data.frames

J.delasHeras at ed.ac.uk J.delasHeras at ed.ac.uk
Fri Apr 21 16:29:47 CEST 2006


Aha! thanks a lot! grep and regexpr were the type of functions I was 
looking for.

Jose

Quoting "michael watson (IAH-C)" <michael.watson at bbsrc.ac.uk>:

> Try
>
> my.data.frame[grep("search term", my.data.frame$column.name),]
>
> -----Original Message-----
> From: bioconductor-bounces at stat.math.ethz.ch
> [mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of
> J.delasHeras at ed.ac.uk
> Sent: 21 April 2006 14:55
> To: bioconductor at stat.math.ethz.ch
> Subject: [BioC] Searching for data in data.frames
>
>
> This may be a very basic question, but I am looking in the R manual and
> I haven't found the right function... and I am sure it must exist
> already. So I apologise in advance if I seem to be blind or missing
> something! :)
>
> What I am after is very simple. I am using Limma and I have a number of
> data frames (RGList, MAList, MArrayLM...). Sometimes I just want to
> locate the data for a particular gene, or where a particular value for M
> occurs, etc.
>
> I want to find, for instance, all occurrences of "COL6A3" in RG$genes,
> and return the position of those occurrences, for instance 345, 7840,
> 15003. Then I can use that information to give me the foreground
> intensities corresponding to that gene for any given slide.
>
> I came across the function "subset" which seems like it would serve my
> purpose (or could be adapted to serve my purpose), but I get errors no
> matter what I do...
>
> I appreciate this must be a pretty basic question, but... I have spent
> the last hour searching for this and so far no luck. I was going to just
> write a simple search function, but there must be already a function
> already defined.
>
> Thanks!
>
> Jose
>
> --
> Dr. Jose I. de las Heras                      Email:
> J.delasHeras at ed.ac.uk
> The Wellcome Trust Centre for Cell Biology    Phone: +44 (0)131 6513374
> Institute for Cell & Molecular Biology        Fax:   +44 (0)131 6507360
> Swann Building, Mayfield Road
> University of Edinburgh
> Edinburgh EH9 3JR
> UK
>
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-- 
Dr. Jose I. de las Heras                      Email: J.delasHeras at ed.ac.uk
The Wellcome Trust Centre for Cell Biology    Phone: +44 (0)131 6513374
Institute for Cell & Molecular Biology        Fax:   +44 (0)131 6507360
Swann Building, Mayfield Road
University of Edinburgh
Edinburgh EH9 3JR
UK



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