Improved reporting

Now report the total number of matrices generated, the number that are
stable and the number that are stable and meet the validation criteria.
Extended vignette
Spelling and typos
Added second vignette
Corrections to second vignette
More corrections to second vignette
Altered Affiliations

Added ACE to the affiliations
Improve consistency with workshop slides
Removed unneeded file
Added pdf figures needed for vignette, updated gitignore
Merge remote-tracking branch 'origin/Example2'