[BioC] Recent changes to Bioconductor packages

madman at jimmy.harvard.edu madman at jimmy.harvard.edu
Sat Mar 15 05:00:02 MET 2003

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.
March 13, 2003: annotate - locuslinkByID and locuslinkQuery now have
    a parameter "browse=TRUE".  If TRUE (default), the behaviour is as
    it was before.  If FALSE, the user's browser does not open up on
    the URL constructed, but rather will return the URL 
    acquired.  JG

March 13, 2003: AnnBuilder - AnnBuilder has been modified to take advantage 
    of the functions provided by pubRepo. A PostgreSQL database is no longer 
    required. Examples of making annotation data packages are given in the 
    vigenette. - JZ

March 12, 2003: pubRepo - a new package for gettting/processing data from 
    various public data libraries were added. Class pubRepo has functions to 
    read data from a source url (using readLines), download data from a source 
    url, and parse data from source url using a predefined parser and base 
    file. Subclasses of pubRepo include LL(LocusLink), UG(UniGene), KEGG, 
    GO(Gene Ontology), GEO(Gene Expression Omnibus), YG(Yease Genome), 
    GP(GoldenPath) that may have methods for processing data for each 
    repositoy. Documentation is not complete yet but will be ready soon. -JZ

March 11, 2003: reposTools - winConvertSourceRepos now generates windows
    binary packages w/ the name structure of <pkg>.zip instead of 
    <pkg>_<version>.zip.  -JG

More information about the Bioconductor mailing list