q2-diversity: rarefied table contains no samples or features

[dr.deepakkukkar (Deepak Kukkar)]

Hi @lizgehret Can you please check my files and let me know if there is any issue with my .qzv files. I am trying to do the alpha and beta diversity analysis but always getting the following errors: Plugin error from diversity:

The rarefied table contains no samples or features. Verify your table is valid and that you provided a shallow enough sampling depth.

Debug info has been saved to /tmp/qiime2-q2cli-err-05aa1jxc.log.

What should be the sampling depth for such analysis? I am not able to identify the errors I am committing while executing the commands.

Regards,

Deepak
table.qzv (402.7 KB)
denoising-stats.qzv (1.2 MB)
rep-seqs.qzv (198.6 KB)
denoising-stats.qzv (1.2 MB)
demux-summary.qzv (314.1 KB)

[colinbrislawn (Colin J Brislawn)]

It's good to see you again Dr. Kukkar,

It looks like the feature table from DADA2 only contains two features.

This is surprisingly low, as most samples I have seen contain >2 microbes.

Can you remind me of the biological context of these samples? If these are Axenic cultures, then having two taxa may be okay.

Do you have 5 samples in total, or are these 5 samples included here as a test run before running this pipeline on more samples?