Question: How reads are divided into taxonomy level in Qiime?
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gravatar for agata88
4 weeks ago by
agata88630
Poland
agata88630 wrote:

Hi all!

I was testing assign_taxonomy.py and summarized_taxa.py scripts for my own reference from NCBI.

My reference was created as GreenGenes reference (fasta and taxonomy file), except that mine contains only species taxonomy (full 16S gene). Since I've made it compatible with qiime I observed that after summarized_taxa.py script all reads are somehow divided into all 7 levels....

Can you explain how summarized_taxa.py works? Is there some kind of thresholds (%?) for phylum, class, order, family, genus, species level that helps calculate number of assigned reads?

Any help will be much appreciated :)

Best, Agata

qiime 16s • 148 views
ADD COMMENTlink modified 4 weeks ago by kennethcondon2007930 • written 4 weeks ago by agata88630

This may help:

ADD REPLYlink written 4 weeks ago by kennethcondon2007930
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