[Bioc-devel] Subsetting affybatch and exprset objects

Vincent Carey 525-2265 stvjc at channing.harvard.edu
Tue Apr 13 18:00:20 CEST 2004

> the problem is th if you subset eset by the first dimension then you
> loose the position structure, and as a consequence the locations of pms
> and mms held in the cdfenv are no longer meaningful. if there are any
> suggestions on what eset[i,] should return id be happy to consider them.

at this time i would suggest for an AffyBatch eset: eset[i,] should fail
with a notice that subsetting by probe is not supported; eset[,j] should
succeed as it keeps the analogy to exprSet indexing; and eset[j] should
fail with wrong number of dimensions.

i think that comma-less subscripting of exprSets should fail too -- but
currently if eset is an exprSet, eset[j] corresponds to gene-level
subsetting.  do we really need that?

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