Some paired-end refinements.  Improved default settings for number of nearest neighbors, number of reads, scaling factor for score difference.
Some paired-end refinements.  Improved default settings for number of
nearest neighbors, number of reads, scaling factor for score difference.

BenLangmead/qtip-experiments,BenLangmead/qtip,BenLangmead/qtip,BenLangmead/qtip,BenLangmead/qtip-experiments,BenLangmead/qtip