ENH: updated to output raw data, still needs testing and code clean-up. fixes #1707
TST: added test of new functionality
Merge branch 'master' of github.com:qiime/qiime into issue-1707
REL: added note to change log
MAINT: fixed typo
Merge pull request #1712 from gregcaporaso/issue-1707

added output of raw data for paired difference testing