Entering edit mode
Rhonda DeCook
▴
90
@rhonda-decook-1033
Last seen 10.2 years ago
srini,
It seems like there's a lot of ways to pull-out information for a
specific gene
depending on the type of object you're working with. The vignettes
should help
you here. Once you're working with a matrix like 'ex.data', a not so
elegant
way is by getting the probeset names with...
> dimnames(ex.data)[[1]]
Then you can pull out the rows(genes) you want from the expression set
using a
boolean vector:
> ex.data[as.logical(dimnames(ex.data)[[1]]=="267644_s_at"),]
This should give you the expression measure for each chip at the given
gene as
a numeric vector.
_____________
To find out the type of an object called 'ex.data', type...
> mode(ex.data)
You can also ask if it is something, like...
> is.matrix(ex.data)
Rhonda
> dear list,
>
> I generated expressions for a study in the following
> way.
>
> rm.data <- justRMA()
> ex.data <- exprs(rm.data)
>
> Now I want to select 217523_at, 212063_at,
> 212014_x_at.
>
> How can I select these probesets.
>
> > dim(data)
> [1] 22283 158
>
>
> 2 question: how do I know data is which type of
> object.
>
> thank you
> srini
>
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