where to get reference taxonomy for training custom classifier?

Dear colleagues, I’m using qiime2 to analyze my paired-end reads of rbcl gene to find out the floral composition of some samples. I need to make database for rbcl gene. I made my ref-seqs.qza using following commands:

qiime tools import --input-path rbcl_upper.fasta --output-path rbcl.qza --type ‘FeatureData[Sequence]’
qiime feature-classifier extract-reads --i-sequences rbcl.qza --p-f-primer TGGCAGCATTYCGAGTAACTC --p-r-primer GTAAAATCAAGTCCACCRCG --p-trunc-len 400 --o-reads ref-seqs.qza

Now I need to make ‘ref-taxonomy.qza’ but I don’t know how to generate “taxonomy.txt” file. Please help me to overcome this problem

Thanks in advance

Hi @saeedmn,

This sounds like a job for RESCRIPt! Specifically, check out:



Thank you for your reply. Sounds great!

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