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Sat, 02 Feb 2008
AnnotationDbi
Major overhaul of PFAM.db
These changes reflect a major overhaul of the new PFAM.db package to
squash bugs in there so that they won't burn users and also to provide
proper documentation.
[/AnnotationDbi] permanent link
rsbml
Add some missing files for libsbml 3.0.
Biostrings
Added basic support in matchPDict() for inexact matching of a dictionary with "trusted prefixes". See ?`matchPDict-inexact` for the details. There has been lots of renaming related to the matchPDict() stuff since 2.7.16, sorry. Version bump.
oops
explorase
Import dependencies (rather than depend on them). Be more robust to
white space and other errors in input files. Move toward network
support. Output coefficients and fitted values from limma. Default to no
p-value adjustment for limma. Handle custom entity types better.
biocViews
Added terms to describe custom CDFs and custom schemas
Added another term for another alternate CDF schema as well as a term
to describe custom schemas for annotation packages based on foreign
database schemas. For all standard annotation packages, there is
already a way to determine and inspect that schema inside of
AnnotationDbi, but for foreign schemas there needs to be a term to
indicate that things are based on a different underlying design.