Message-ID: <4607D804.4090306@ebi.ac.uk>
Date: 2007-03-26T14:26:12Z
From: Wolfgang Huber
Subject: [Bioc-devel] RFC: eSet with two color data
In-Reply-To: <m2mz20xf35.fsf@ziti.fhcrc.org>
Hi Seth,
> Thinking through option A, it also requires infrastructure because it
> breaks the subsetting model in the other direction. If a user does:
>
> x[1:3, ]
>
> what should happen? With the current code, they would get something
> that would not be a valid n-colour set and probably would not be
> desired in this context. Since both options require some subset
> coding, I think going for the option that suggests more efficiency
> is best.
What should happen is that they get an ExpressionSet with only three
features, but the same samples (arrays x colours = columns of exprs and
rows of phenoData). The different colours are stored sideways, so unless
I really need to catch up with recent changes in Expression specs, I
think the row-subsetting does what we want.
Best wishes
Wolfgang
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Wolfgang Huber EBI/EMBL Cambridge UK http://www.ebi.ac.uk/huber