I am using qiime for 16srRNA analysis. I used pick_open_reference_otus.py with green genes as reference. As I am new to 16s analysis I want to know how to remove Chimeric sequences from the resulting files from uclust in qiime.
I have tried using the http://qiime.org/tutorials/chimera_checking.html commands but it is generating a blank chimera txt file. Usearch does not work as well. Is there any other method? Also,Is it necessary to remove chimeric sequences after uclust otu picking in qiime?