[BioC] Recent changes to Bioconductor packages

[madman at jimmy.harvard.edu]

This is an automated message sent out weekly to report recent changes
to Bioconductor packages.  Please see the URL 
http://www.bioconductor.org/changelog.html for a complete history of 
changes.  Unless otherwise noted, these changes apply to the developmental
packages only.
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06 September 2003: limma 1.1.17 - new backgroundCorrect options.  GKS

04 September 2004: affy - now depends on R 1.8.0 because of new install
   mechanism.  CS

04 September 2003: annaffy - package updated to use the install.R
   mechanism.  CS

04 September 2003: limma 1.1.16 - new argument 'include' in vennCounts
   and vennDiagram.  Support for correlated design matrices added to
   'contrasts.fit'.  GKS

03 September 2004: annaffy - updated .Rd files to use new R 1.8.0 \alias{}
   format for S4 methods.  CS

03 September 2003: genefilter - Converted to use install.R mechanism. JG

03 September 2003: affy - Affy package was updated to use the install.R 
   mechanism.  JG

03 September 2003: limma 1.1.15 - new class exprSet2.  new function
   topTable.  New argument 'bin' in loessFit.  Fine tuning of
   interpolation settings used by loessFit.  Corresponding changes to
   documentation.  GKS

02 September 2003: Rgraphviz - removed the agset() function and tied the
   attribute setting to be more directly integrated with agopen() in the
   C code. JG

02 September 2003: graph - change to edgeWeights() such that weights vectors
   are now always named.  JG

02 September 2003: Imported limma 1.1.14 - read.maimages now supports
   SMD data files.  GKS