About
Click here
to learn more about this blog.
Packages
Click on a link
for updates to that package only.
Subscribe
Subscribe to the
Bioconductor Changlog.
Wed, 13 Feb 2008
limma
13 February 2008: limma 2.13.4
- all uses of I() in data.frame() arguments removed and replaced
with stringsAsFactors=FALSE. This ensures that the appropriate
columns in data.frames will have class "character" instead of
"AsIs".
- arrayWeights() now gives nice error message if the number of
arrays is too few to give statistically useful results.
annotate
Changes to htmlpage(). The repository argument must now be a list. Deprecated the 'LL' functions in lieu of the 'EN' functions, intended for querying Entrez Gene. Also ceased exporting internal function used by htmlpage such as getCells(), the getQuery4XX functions, etc.
minor bug fixes for htmlpage, also seem to be issues with the way
that character data are being stuck into data.frames - they come out AsIs
and that breaks lots of things
VanillaICE
changed the default for getting confidence scores to use a robust estimate for the across sd. See calculateCnSE
fixed broken links to ParESet
graph
noted that join() will set edgeweights to 1 in resulting graph
arrayQualityMetrics
Handling of ExonArrays
[/arrayQualityMetrics] permanent link
Biobase
- data.frame(x=I()) replaced with data.frame(x=,stringsAsFactors=FALSE)
- added 'Bug fixes' section to NEWS