[Bioc-devel] [devteam-bioc] problem w/ "exprs<-" method and LumiBatch objects
robert.castelo at upf.edu
Fri Jan 10 22:58:45 CET 2014
you're right. i should have done this upfront, this was too much S4
magic to be true :)
On 1/10/14 5:14 PM, Kasper Daniel Hansen wrote:
> Robert: The alternative to using exprs<- is to instantiate a new object,
> just copying the old phenodata.
> On Fri, Jan 10, 2014 at 10:58 AM, Levi Waldron <levi.waldron at hunter.cuny.edu
>> On Fri, Jan 10, 2014 at 9:59 AM, Kasper Daniel Hansen <
>> kasperdanielhansen at gmail.com> wrote:
>>> Unfortunately, you may want to be careful about making it too robust
>>> (depending on what you mean). For example filtering methods could very
>>> well be seen as replacing one matrix with a smaller one. Not sure if
>>> methods use exprs<-, but that is probably how I would do it.
>>> What would be better is if in the process of doing the replacement, the
>>> other slots are harmonized in a relevant way. That would require row
>>> on the replacement matrix.
>> I suspect I also have used exprs<- to change the number of rows of an
>> ExpressionSet during analyses, when there were no featureData. Not that I
>> mind changing, but it may not be unusual "out there."
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