Added 2 new scripts
Merge pull request #1 from brianyeo/master

Added 2 new scripts
Improved the usage statement so it's more clear what arguments the program is looking for.
Merge pull request #2 from brianyeo/master

Improved usage statement
Modified perl scripts to look in lib/ for libraries
Updated readme with instructions for installing
Supports high/low confidence analysis, outputs to formatted file, and supports whole tree analysis (instead of manually selecting strains)
Uploading new script
Merge pull request #5 from mariamiskander/master

New Script
made changes as outlined by pull request #4
Merge pull request #4 from LaurenSlu/master

Supports high/low confidence analysis, outputs to formatted file, and su...