Running PERMANOVA with existing output files

[hharder (Hannah Harder)]

I have received Qiime output from a collaborator, but I want to run an additional PERMANOVA analysis to compare the beta diversity from my two groups. How can I import my qza/qzv files to Qiime to run the PERMANOVA. My collaborator has already shared the following code to run the analysis:

qiime diversity beta-group-significance
--i-distance-matrix core-metrics-results/unweighted_unifrac_distance_matrix.qza
--m-metadata-file sample-metadata.tsv
--m-metadata-column body-site
--o-visualization core-metrics-results/unweighted-unifrac-body-site-significance.qzv
--p-pairwise

But I am just unsure how to get the qza, tsv, and qzv files which he sent me back into Qiime.

Any advice would be greatly appreciated.

[crusher083 (Valentyn Bezshapkin)]

Hello and welcome to

The question you're asking has a detailed answer in the first QIIME 2 tutorial: “Moving Pictures” tutorial — QIIME 2 2022.8.3 documentation
It's actually a code snippet from the tutorial.

Good luck!
V

[hharder (Hannah Harder)]

The part I don't understand is how to get the qza/qzv files back into Qiime. I did not generate them - my collaborator just emailed them to me.

I see that the tutorial has the following code:

wget
-O "gg-13-8-99-515-806-nb-classifier.qza"
"https://data.qiime2.org/2022.8/common/gg-13-8-99-515-806-nb-classifier.qza"

But my data is not online. Would I just replace the URL with the path on my computer?

[crusher083 (Valentyn Bezshapkin)]

Yes, exactly.

Cheers,
V