Merge branch 'collab'

* collab:
  More documentation updates
  Improve documentation for computeBayesFactor.Rd
  Add defunct.Rd
  Add deprecated function xyplotTrioLrrBaf.  Remove inst/docMinimumDistance.Rnw-- this causes a problem in the R script link on BioC
  Creating branch for BioC 2.11 release.

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MinimumDistance@70182 bc3139a8-67e5-0310-9ffc-ced21a209358
@<- has been moved from methods to base, so it no longer needs to
be imported in package NAMESPACEs.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MinimumDistance@72298 bc3139a8-67e5-0310-9ffc-ced21a209358
merge with collab branch

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/MinimumDistance@72706 bc3139a8-67e5-0310-9ffc-ced21a209358