Do not want a sampling depth for core-metrics-phylogenetic function

[mweinroth (Maggie Weinroth)]

I am using CSS normalizing and importing my tables back into QIIME2 for analysis. Since I already normalized is there a way I could not enter a sampling depth in core-metrics?

While the range of my total normalized hits is small (3200 to 3790) I do not want to rarify down to 3200-- but is this my best option?

Thank you!

[colinbrislawn (Colin J Brislawn)]

Good morning Maggie,

I think you could use the plugins directly to avoid the rarefaction step.
https://docs.qiime2.org/2018.8/plugins/available/diversity/alpha/
https://docs.qiime2.org/2018.8/plugins/available/diversity/beta/

Let me know if this works well for you.

Colin

[mweinroth (Maggie Weinroth)]

Thank you! That worked great.