18S_chimera – 100% subsampled OTUs

Been thinking about OTU picking, and if we really want to figure out how chimeric sequences are being incorporated into OTUs, I have to cluster 100% of the failure OTUs. So running another round of analyses:

96 clustering:

pick_open_reference_otus.py -i /home/ubuntu/data/chim_demux.extendedFrags_primersremoved_fastxtrimmed_chimeraslabelled.fasta -o /home/ubuntu/data/18S_chimera_openref96_alldenovo_18Oct13 -r /home/ubuntu/data/silva_111/99_Silva_111_rep_set_euk.fasta --parallel -O 8 -s 1.0 --prefilter_percent_id 0.0 -p /home/ubuntu/data/qiime_parameters_18Schimera_96_amazon.txt

99% clustering:

pick_open_reference_otus.py -i /home/ubuntu/data/chim_demux.extendedFrags_primersremoved_fastxtrimmed_chimeraslabelled.fasta -o /home/ubuntu/data/18S_chimera_openref99_alldenovo_20Oct13 -r /home/ubuntu/data/silva_111/99_Silva_111_rep_set_euk.fasta --parallel -O 8 -s 1.0 --prefilter_percent_id 0.0 -p /home/ubuntu/data/qiime_parameters_18Schimera_99_amazon.txt
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