Changes in version 1.3.7:

    o   Updates to vignette

    o   Fix bug removing variants by name in variantCounts

    o   Fixed argument legend.symbol.size being ignored in
	 plotAlignmenta,DNAString-method.

Changes in version 1.3.6:

    o   Fix in new function mergeChimeras when no chimeras present

Changes in version 1.3.5:

    o   New option "minoverlap" in readsToTarget allows reads that do not
	 span the target region to be considered

    o   plotAlignments now works with character as well as DNAString objects

    o   Merging of long gaps mapped as chimeras now possible

Changes in version 1.3.4:

    o   New function refFromAlns infers the reference sequence from aligned
	 reads

    o   Fixed bug causing an empty plot when plotting a single alignment
	 with a large deletion

    o   Changed annotateGenePlot from panel.margin to panel.spacing in
	 accordance with recent ggplot2 versions

    o   Added "create.plot" argument to plotAlignments for signature
	 CrisprSet to make plot customisation easier.

    o   Fixed bug in argument names when all alignments are chimeric

    o   CrisprRun name now defaults to the coordinates when no name is
	 provided

Changes in version 1.3.3:

    o   Fixed bug causing incorrect x-axis position in plotAlignments when
	 strand unspecified

Changes in version 1.1.6:

    o   plotAlignments can now mark codon boundaries if codon frame is
	 specified.

    o   Added citation

Changes in version 1.1.5:

    o   More flexible specification of strand with new readsToTarget
	 parameter 'orientation'

    o   Fixed warning caused by implicit embedding of S4 objects

    o   Added tests for 'plotAlignments' and 'annotateGenePlot'

    o   Minor speedup and internal restructuring of 'annotateGenePlot'

    o   Added CRISPR biocView

    o   Changed NEWS to rd format

Changes in version 1.1.4:

    o   Fixed a bug that prevented SNV settings being used in some
	 circumstances

Changes in version 1.1.2:

    o   new function consensusSeqs returns the consensus sequences of the
	 variant alleles