[Bioc-devel] biocViews preprocessing term
yes in specific, and although you did not ask it does appear that we need some renovation of the biocViews vocabulary. alas i am not really clear on how modifications to the vocabulary impact the build system. i will take a look at this and make a proposal momentarily. --- Vince Carey, PhD Assoc. Prof Med (Biostatistics) Harvard Medical School Channing Laboratory - ph 6175252265 fa 6177311541 181 Longwood Ave Boston MA 02115 USA stvjc at channing.harvard.edu
On Tue, 2 Sep 2008, Florian Hahne wrote:
Hi Vince, the cellHTS and cellHTS2 package provide (mostly) preprocessing functionality for cell-based assays, and assigning the biocViews term "Preprocessing" seems to be reasonable. However, in the ontology this is defined as "Microarray -> Preprocessing;", and that's not really what we want. Shouldn't there be a general "Preprocessing" term independent of micro arrays. I guess this will also become interesting for many of the other emerging new technologies like deep sequencing. With the current design, it seems this is not possible, since terms have to be unambiguous. Is there any reasonable way of dealing with this problem other than adding a new term like "General Preprocessing"? And wouldn't it be useful to allow for terms like "Technology -> FlowCytometry ->Preprocessing;" Florian -- Florian Hahne, PhD Computational Biology Program Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-3148 fhahne at fhcrc.org