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. ---------------------------------------------------------------------- - 30 April 2004: annaffy - handles missing GO terms better. CS

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. ---------------------------------------------------------------------- - 7 May 2004: limma 1.6.3. GKS - merge method for MAList objects - functions FStat, dupcor.series, classifyTests now use match.call() and eval() - clean up help entry for auROC() - fix documentation bug for topTable(adjust=NULL)

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.

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. ---------------------------------------------------------------------- - May 19, 2004. MetaData - Developmental annotation data packages (1.6.0) are available. New features include: a. Environments pkgNameNM and pkgNameNP (e. g. hgu95av2NM) no longer exist in the platform specific packages (e. g. hgu95av2) but are replaced by a new environment pkgNameREFSEQ that contains the annotation data for all the RefSeq accession records. The environment HGID has been droped. Mappings between probe ids to HGID can be obtained through the mappings to LocusLink ids to HGIDs in the homology data package. b. GO package contains new environments ANCESTOR and OFFSPRING that maps GO ids to all the ancestor and offspring along the GO tree. GOTERM no longer exists and is replaced by GOTERMS that maps GO ids to GOTerms objects with a GOId, Ontology (originally in GOTERM), Synonym, Secondary, Definition, and Category slots. c. homology package now maps internal HomoloGeneIds to homoData objects that has slots for organism name, LocusLink ids, internal HomoloGeneIds, GenBack Accession numbers, type of similarities, percent of identity, and urls for homologous genes in other organism. Environment LL2HGID maps LocusLink ids to internal HomoloGeneIds. d. New annotation data packages for non-Affymetrix chips have been added. New packages include hguMWG30kA, hguMWG30kB, mguAtlas5k mguG4104A, mguG4120A, mguG4121A, mguMWG30kA, mguMWG30kB, rguAtlas5k, rguG4105A, rguG4130A, rguMWG10k, rguMWG5k. Pakckages with Atlas as part of the names are for BD Biosciences microarrays, MWG are for MWGAG BIOTECH microarrays, and G for Agilent microarrays.

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.