Optimize most likely sequence (2x speedup)
Don't use a an array to store max probability
Merge branch 'master' into optimize

* master:
  get topics to work by adding sequence parser to each data structure
  Fix PDF
Optimize output count to cache counts
change variable names, add correct percentage to end of program output
Merge pull request #11 from ianks/optimize-output-count

Optimize output count to cache counts
Remove majority of printing, update -v option to print everything
Merge pull request #12 from ianks/reduce-printing

Remove majority of printing, update -v option to print everything
cache transition count and state-based transition counts
Merge pull request #13 from ianks/cache-transition-count

cache transition count and state-based transition counts
Merge pull request #10 from ianks/optimize

Optimize most likely sequence (2x speedup)