into QIIME workflow.
This workflow is an attempt to test the UPARSE algorithm against existing an clustering workflow. Raw sequence files are not included in the github repo due to their size.
Most commands are in the makeUPARSE.sh script, and this creates the
directory architecture as it goes.
With a ~10gb sequence file, this takes no more than an hour... Except
One final OTU table making command has to be run on a cluster
(python script uc2otutab.py), thus the pbs script makeUPARSEotus.sh.