What file(s) on the GG2db ftp site can I use as reference-taxonomy for classification by BLAST?

biocore / q2-greengenes2

A QIIME 2 plugin for interaction with the Greengenes2 database

BSD 3-Clause "New" or "Revised" License

26 stars 3 forks source link

What file(s) on the GG2db ftp site can I use as reference-taxonomy for classification by BLAST? #18

Closed VoronDM closed 1 year ago

VoronDM commented 1 year ago

Hi,

What file(s) on the ftp site can I use for classification by BLAST?

qiime feature-classifier classify-consensus-blast --i-query "myclusters.qza" --i-reference-reads 2022.10.seqs.fna.qza --i-reference-taxonomy ??? --o-classification "output-taxonomy" --o-search-results "output-taxonomy_blast"

Any from these files?

2022.10.taxonomy.asv.tsv.qza
2022.10.taxonomy.id.tsv.qza
2022.10.taxonomy.md5.tsv.qza

Thanks.

wasade commented 1 year ago

For reference-reads, I recommend full-length. For taxonomy, I believe the tabular .id artifact should work here.

wasade commented 1 year ago

I believe this is solved, please reopen if needed

VoronDM commented 1 year ago

I believe this is solved, please reopen if needed

Thank you very much!