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Bioconductor Changlog.
Wed, 30 Jan 2008
AnnotationDbi
Changes and bug fixes for making chip based pkgs.
These changes and bug fixes allow things to work properly for making
chip based databases and bundling these into packages. There is still
a minor issue with arabidopsis to fix. And then the intermediate
databases need to be bundled into packages for easy distribution and
the default paths set for these helper functions.
Wrapper functions for chip packages
This update adds wrapper functions for chip packages along with man
pages. This code still needs to be much more thoroughly tested and
there are still problems here with support for Yeast and Arabidopsis
which both still need to have the portion of their code that maps data
set up for the mapping of non-affy packages. But at least now it
should be possible to call a function, and have it make a database,
and then wrap that up into a chip based package. Organism based
packages are more monolithic and so are not really expected to need a
wrapper package. Although the code to make the sqlite files and the
packages for these is already here.
[/AnnotationDbi] permanent link
pdInfoBuilder
Fixed bug that caused MM sequences to be inconsistent - particular case: offset 0 SNP [A/T] or [C/G]
Fixed bug which caused MM sequences to be inconsistent - nb: genotype calls via CRLMM are not affected
[/pdInfoBuilder] permanent link
BAC
added the BAC package
AffyExpress
correct import.data