in converting tsv to biom file

[baehsung (HEE-SUNG BAE)]

Hi,

I am trying to a taxonomy table.txt to qza format, of which a final goal is to make my own classifier.
The first step, as far as I learned in this forum, is to convert txt to biom file.

Using taxonomy table (see below), i converted txt to biom format with command:

"biom convert -i dsrB-taxonomy.tsv -o dsrB-tax.biom --table-type "OTU table" --to-hdf5"

That command resulted in creating dsrB-tax.biom in my qiime folder.

Q1: is the command right? I don't know why the table-type is "OTU table"
Q2: is there a way to check out if the biom is correctly made as taxonomy table?

I would appreciate any comment and/or advice..

HS

[timanix (Timur Yergaliyev)]

Hello!
To import taxonomy into the Qiime2, you do not need to convert it to the biom format.

qiime tools import \
  --type 'FeatureData[Taxonomy]' \
  --input-path taxonomy.tsv \
  --output-path taxonomy.qza

[baehsung (HEE-SUNG BAE)]

Yes, it's work !!
Thanks timanix.

I am going to test if the ref-seqs.qza and taxonomy.qza, which I have made, can make classifier successfully and work for my marker gene seqs analysis. And I will get back with if this trial have a new issue on the classification of marker gene..

HS