Cleaned up project (misc. changes).

Several changes in preparation for the first real run of this system:
* Renamed personal_microbiome/ directory to my_microbes/
* Cleaned up personal_results.py script documentation, updated usage examples to match current interface, etc.
* Removed unnecessary readmes scattered throughout
Removed extra readme I missed before.
Updated references to personal_microbiome.

Imports, tests, etc. now correctly reference my_microbes.
Renamed references to distance matrices.

Distance matrices are not used by this system, so all references have been updated to be coordinate files.
Merge branch 'master' into issue_28
Merge pull request #30 from jrrideout/issue_28

Misc. cleanup in preparation for first real run next week.