Thanks Johannes, this is a valuable contribution and I've added it to the
'official' vignette.
Martin
From: Bioc-devel [bioc-devel-boun...@r-project.org] on behalf of Rainer
Johannes [johannes.rai...@eurac.edu]
Sent: Thursday, January 07, 2016 9:10 AM
To: Bioc-devel
Subject: [Bioc-devel] Use of EnsDb in the AnnotationDbi framework
Dear all,
thanks to Vince’s suggestion I have now implemented the central AnnotationDbi
methods “columns”, “keys”, “keytypes” and “select” for EnsDb objects in my
ensembldb package version 1.3.11 (EnsDb are TxDb like annotation
packages/objects tailored to Ensembl based annotations). Thus, EnsDb based
annotation packages can now be used in the AnnotationDbi framework. The methods
support in addition also the filter framework of the ensembldb package to
provide some more fine grained querying and data retrieval.
I have forked the AnnotationDbi package and added a section to its
“IntroToAnnotationPackages.Rnw” vignette describing how to use EnsDb objects
along with the above mentioned methods
(https://github.com/jotsetung/AnnotationDbi). Eventually this could also be
inserted to the “official” AnnotationDbi package.
best, jo
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