Hi Steve,
On 08/17/2010 02:37 PM, Steve Lianoglou wrote:
Once we get our own R2D2 like 3d/hologram displays/projectors, perhaps
revisiting this issue would be fruitful ... :-)
:-)
Yes, that's what I'm asking -- I'd like functions like exonsBy, cdsBy,
transcripts, exons, etc. to be S4-ized (and allowed to take an '...'
parameter).
Sounds good to me. I'll wait a couple of days before I make the change
so people have time to comment/object if they want.
Thank you.
All these functions are generic starting with GenomicFeatures
1.1.11 (devel only).
...
... the getMetadata(...) IMHO *is* actually more useful to the
consumer of the package, though.
I added a "metadata" method for TranscriptDb objects to GenomicFeatures
1.1.11. Note that for naming getters / setters in R, the foo / foo<-
convention can be used.
I also added a man page for id2name() as discussed previously.
The only reason I linked to that page github page, though, was that I
thought it might be helpful to you if I gave you a list of functions I
identified in the GenomicFeatures package that I trampled/S4-ized, not
to tell you guys how to design your packages ... sorry if it came
across that way :-)
No worries. Having feedback is always good.
Cheers,
H.
--
Hervé Pagès
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
P.O. Box 19024
Seattle, WA 98109-1024
E-mail: [email protected]
Phone: (206) 667-5791
Fax: (206) 667-1319
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