Re: [Bioc-devel] FW: GO offspring consistency

2014-12-05 Thread Marc Carlson
Thanks Vince, But actually I was planning to take this straight to the manual pages. It's going to make for a longer manual page, but someone might find it helpful down the line. Marc On 12/05/2014 10:14 AM, Marc Carlson wrote: Hi Jelle, Thank you for your patience in waiting for my an

Re: [Bioc-devel] FW: GO offspring consistency

2014-12-05 Thread Marc Carlson
Hi Jelle, Thank you for your patience in waiting for my answer here. It took me a lot longer to properly test and validate this than I initially expected. So if you look at amigo you can see these graph views that show you what the current terms up and downstream of a given GO term should be

[Bioc-devel] FW: GO offspring consistency

2014-12-02 Thread Jelle.Goeman
Hi All, When working with the GO.db package we ran into a seeming inconsistency in the GOBPOFFSPRING object. It seems there that a term's offspring may have offspring that is not offspring of the term itself. This seems inconsistent with the DAG structure of gene ontology. > library(GO.db) >