###—qiime-zlab------#zj@zlab.ac.cn#版权所有，仅供学习参考#中国科学院Generate BIOM table summary commandbiom summarize-table -i otus/otu_table_mc2_w_tax_no_pynast_failures.biom -o cdout//biom_table_summary.txt Filter low sequence count samples from table (minimum se
#!/bin/bash
zlab-qiime1-pipelines
Pick Reference OTUs (prefilter) command
parallel_pick_otus_uclust_ref.py -i split_library_output/seqs.fna -o picked_otus_uclust/prefilter_otus/ -r /home/zlab/qiime_software/gg_otus-12_10-release/rep_set/97_otus.fasta -T --jobs_to_start 4 --similarity 0.6 --enable_rev_strand_match
Filter prefilter failures from input command
filter_fasta.py -f split_library_output/seqs.fna -o picked_otus_uclust/prefilter_otus//prefiltered_seqs.fna -s picked_otus_uclust/prefilter_otus//seqs_failures.txt ¨Cn
Pick Reference OTUs command
parallel_pick_otus_uclust_ref.py -i picked_otus_uclust/prefilter_otus//prefiltered_seqs.fna -o picked_otus_uclust/step1_otus -r /home/zlab/qiime_software/gg_otus-12_10-release/rep_set/97_otus.fasta -T --jobs_to_start 4 --similarity 0.97 --enable_rev_strand_match
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