Add wrapper for cummeRbund 2.8.2
Add tool to convert cummeRbund SQLite to cufflinks tabular files.
Modify cufflinks to output a single SQLite file.
Remove cufflinks tool xml from the cummeRbund folder.
Code cleanup, incremented cuffdiff wrapper version.
Re-fix links that were un-fixed in a merge accident.
Update tests and test data for cuffdiff.
Code cleanup, add tests for cummerbund_to_tabular
Remove commented out development imports.
Add tests for cummeRbund, one for each plot type. Minor code cleanup.
Rearrange help and citations per Björn's suggestion.
Merge pull request #47 from InitHello/master

Add or update cufflinks, cummeRbund, cummerbund to tabular.