- fixes issues with PICRUSt plotting
- added titles to cladograms
- minor fixes to installation errors
- added PICRUSt support
- now removes all rows with 0 sums
- added dpi option for cladogram
- default now pdf for cladogram
- removed old commented code
- remove unused arguments
- updated argument interpreter
- implemented a logging system
- fixed individual comparisons bug not working
- added pretty_lefse.py to make combined tables
- added R package installation within setup.py
- cleaned up greengene naming convention
- started script to convert to graphlan
- added option --clade to plot lefse cladogram with default settings.
- removed koeken console script
- added more code to eventually add pretty lefse
- fixed bug that wouldn’t print numerical time points
- complete rewrite of script
- better integration of pandas python package
- fixed many bugs