Entering edit mode
5.2 years ago
Bioinfonext
▴
460
I need to ask one thing about qiime1
for OTU assignment I used below command is it correct to use -m rdp when providing fasta and taxonomy file
I assign OTU using this command:
assign_taxonomy.py -i seqs.fna_rep_set.fasta –r 97_otus.fasta –t 97_otu_taxonomy.txt -m rdp
I used fasta and taxonomy file from latest greengenes database gg_13_8_otus.tar.gz
I am not sure -m rdp is correct to use here?
Thanks
Thanks, it is resolved. by default, it used uclust method and I have provided rdp method.