How to use picrust2
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Picrust2 usage
# remove comment information from sequence ID to avoid errors: no ASV ids overlap between input FASTA and sequence abundance table
Get_fa_by_id.pl $workdir/5.pick_otu_qiime/pick_de_novo_otus/otu_table_clean.txt $workdir/5.pick_otu_qiime/pick_de_novo_otus/rep_set/qiime_rep_set.fasta rep_set.farm-rf picrust2_outpicrust2_pipeline.py-s rep_set.fa-I $workdir/5.pick_otu_qiime/pick_de_novo_otus/otu_table.biom-o picrust2_out-- processes 1-- in_traits COG,EC,KO,PFAM TIGRFAMadd_descriptions.py-I picrust2_out/EC_metagenome_out/pred_metagenome_unstrat.tsv.gz-m EC\-o picrust2_out/EC_metagenome_out/pred_metagenome_unstrat_descrip.tsv.gzadd_descriptions.py-I picrust2_out/KO_metagenome_out/pred_metagenome_unstrat.tsv.gz-m KO\-o picrust2_out/KO_metagenome_out/pred_metagenome_unstrat_ Descrip.tsv.gz add_descriptions.py-I picrust2_out/COG_metagenome_out/pred_metagenome_unstrat.tsv.gz-m COG\-o picrust2_out/COG_metagenome_out/pred_metagenome_unstrat_descrip.tsv.gz add_descriptions.py-I picrust2_out/PFAM_metagenome_out/pred_metagenome_unstrat.tsv.gz-m PFAM\ -o picrust2_out/PFAM_metagenome_out/pred_metagenome_unstrat_descrip.tsv.gz add_descriptions.py-I picrust2_out/TIGRFAM_metagenome_out/pred_metagenome_unstrat.tsv.gz-m TIGRFAM\-o picrust2_out/TIGRFAM_metagenome_out/pred_metagenome_unstrat_descrip.tsv.gz add_descriptions.py-I picrust2_out / pathways_out/path_abun_unstrat.tsv.gz-m METACYC\-o picrust2_out/pathways_out/path_abun_unstrat_descrip.tsv.gz reads here This article "how to use picrust2" has been introduced, and if you want to master the knowledge points of this article, you still need to practice and use it. If you want to know more about the article, please follow the industry information channel.
