[BioC] converting probe to gene level

[Naomi Altman]

I think in general the point of algorithms like rma is that you can 
do better than a simple average.  For example, you might use median 
polish or at least a robust method such as a trimmed mean.  Of 
course, if you only have 2 or 3 probes per gene, averaging is about 
the best you can do.

Naomi


At 05:55 PM 1/12/2011, Wei Shi wrote:
>Hi Viritha:
>
>         You do not need a function, but the code below should do this:
>
>For array1:
>tapply(x$array1, factor(x$genes), mean) # x is a data frame 
>containing the data in your example.
>
>Cheers,
>Wei
>
>On Jan 13, 2011, at 8:38 AM, viritha kaza wrote:
>
> > Hi Group,
> > Is there any function which would help in converting data from probe level
> > to gene level by averaging the expression of all the probes 
> corresponding to
> > a gene.
> > For eg:
> >                         array1      array2
> > probe 1 Gene 1    2                 4
> > probe 2 Gene 1    4                 3
> > probe 3 Gene 2    5                 4
> >
> > result:
> >            array1 array2
> > Gene1    3           3.5
> > Gene 2   5           4
> > Could any one give some ideas to perform this?
> > Thanks,
> > Viritha
> >
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> >
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