How to create biom table using QIIME2 ?


I need to get this format .biom to achieve microbial analysis. I generated using qiime2 table.qza and rep-seqs.qza files. How can i convert using qiime2 table.qza to .biom format ? Does the table-qza file corresponds to biom file ? What is the common structure of a biom file, i mean what does biom file represents in different columns ?


Hi @M_F ,

The table.qza file does contain the same information that are in the biom file,
in fact you can use the export command to extract the biom file from a table.qza file,
as in the following command

qiime tools export
--input-path table.qza
--output-path exported-feature-table

You will obtain a new folder named 'exported-feature-table', inside this there is a 'feature.biom'
file, this is the biom you are looking for.

You can use the same command to extract a 'sequence.fna' file form your rep-seq.qza file in case you will need it.


1 Like

Thanks a lot @llenzi

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