Changes in version 0.9:

    o   Fixed a problem with "width" in the title of bsseq plots.

    o   plot.BSseqTstat now allows for BSseqTstat objects computed without
	correction.

    o   validObject(BSseq) has been extended to also check for sampleNames
	consistency.

    o   Fixed a bug related to validity checking.

    o   Increased maxk from 10,000 to 50,000 in calls to locfit, to
	allowing fitting the model on genomes with unusally long
	chromosomes (Thanks to Brian Herb for reporting).

    o   The class representation for class 'BSseq' has changed completely.
	The new class is build on 'SummarizedExperiment' from GenomicRanges
	instead of 'hasGRanges'.  Use 'x <- updateObject(x)' to update
	serialized (saved) objects.

    o   Fixing a problem in orderBSseq related to chromosome names.

    o   Allowed user specification of maxk, with a default of 10,000 in
	BSmooth.

    o   Many bugfixes made necessary by the new class representation.

    o   Better argument checking in BSmooth.tstat.

    o   A few undocumented functions are now documented.

    o   Rewrote orderBSseq

Changes in version 0.7:

    o   Removed the returnRaw argument to read.bismark() as it was
	unnecessary (Bismark output files does not have additional
	information beyond M and Cov and genomic positions, unlike
	BSmooth).

    o   Moved the Bismark example data from data to inst/extdata.

    o   combineList() now deals with the case where the list of BSseq
	objects have different genomic locations.  This speeds up
	read.bismark() substantially.

    o   Exposed combineList() as a faster alternative to Reduce(combine,
	list).

    o   Updated the code for the plotting routines (plotRegion).  This
	should not have an impact on user-visible code.

    o   Added read.bismark() function to parse output from the Bismark
	alignment suit [thanks to Pete Hickey].

    o   Refactorized plotting code.

Changes in version 0.6:

    o   Fixed a bug in getMeth, where type="raw" resulted in an error for
	non-smoothed data objects.

    o   Updated CITATION and citations in the vignettes.

    o   Now read.bsmooth supports both gzipped and non-gzipped files,
	whereas previously it assumed the output files to be gzipped.
	Thanks to Andreas Schoenegger for reporting this problem.

    o   Fixed a bug in combine() that also resulted in a bug in
	read.bsmooth when multiple input directories were specified.  Bug
	reported by Andreas Schoenegger.

Changes in version 0.4:

    o   Improved combine and fixed a bug.  Also added a non-exported
	combineList for testing.

    o   Bug fix to read.bsmooth; it now works correctly for the default
	settings (= returning a single object of class BSseq and not a
	list).

    o   Getting ready for initial release on Bioconductor.

    o   Updated the citations in the vignette(s) and the CITATION file.