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Bioconductor Changlog.
Wed, 28 May 2008
BSgenome
In addition to using a gap file per sequence, forgeMaskFiles() can now use one single gap file as the input for extracting the masks of "assembly gaps" for all the sequences in a BSgenome package (this file must be named "gap.txt").
BSgenome
Some improvements to the GenomeSearching vignette. Time to bump the version (to 1.9.3).
BSgenome
More improvements to the BSgenomeForge code. No version bump.
BSgenome
Some improvements to the BSgenomeForge code. Version bumped to 1.9.2
BSgenome
the single sequences stored in a BSgenome object are now masked by the (inactive) built-in masks at load-time (when built-in masks are included in the BSgenome package for this sequence)
Some improvements to forgeMaskFiles(). Version bumped to 1.9.1
BSgenome
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
added missing doc
BSgenome
Following renaming of the BStringViews class -> XStringViews in Biostrings. Bumped version to 1.7.8.
BSgenome
Following renaming of the BStringViews class -> XStringViews in Biostrings. Bumped version to 1.7.8.
BSgenome
Updated the dependencies. Version bumped -> 1.7.7
BSgenome
Fixed injectSNPs() so loading a sequence for which no SNPs are available doesn't produce an error anymore. Version bump.
Added the available.SNPs() utility function for getting the list of SNPlocs.* packages currently available + the "SNPlocs_pkgname" accessor for BSgenome objects + the injectSNPs() function for injecting SNPs into a BSgenome object. Version bumped.
BSgenome
changed the license from LGPL to Artistic-2.0
The buildDataFiles() function used for building BSgenome packages now puts "multiple" sequences in DNAStringSet objects instead of BStringViews objects. Updated Depends field and bumped the version.
BSgenome
The "show" method for BSgenome objects now honors the global "width" option. Version bump.
BSgenome
Some improvements to BSgenome-class.Rd