Dear 
community,
I am trying to estimate microbe-metabolite interactions with mmvec (in qiime-2020.6 since tensorflow won't install in newer qiime2 versions) and my biplot and heat map look really strange! 
The metabolite data is normalised for an internal octanol standard and each sample measured twice so I used the mean thereof and filtered with frequency >1.
My microbiome data is just a filtered FeatureTable of Fungi.
In the Emperor plot, all taxa align on a single error and Axis 1 has >93%!
In the Heatmap there seems to be a block of negative correlation - but I don't think I should remove any outliers or normalise the input data.
Stranger even, the model diagnostics look pretty good and I get a Pseudo Q-squared of 0.63. 
I would appreciate any ideas or input on why my outputs look this way and what I can do to get "better" results. 
Thanks for putting together this great plugin!
Lena
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I am attaching the files and code I am using:
qiime mmvec paired-omics
--i-microbes zero_filtered_table.qza
--i-metabolites metabolites_filtered.qza
--p-summary-interval 1
--output-dir model_summary
qiime emperor biplot
--i-biplot model_summary/conditional_biplot.qza
--m-sample-metadata-file Volatiles_categories.txt
--m-feature-metadata-file taxonomy.tsv
--p-ignore-missing-samples
--o-visualization emperor.qzv
qiime mmvec heatmap
--i-ranks model_summary/conditionals.qza
--m-microbe-metadata-file taxonomy.tsv
--m-microbe-metadata-column Taxon
--m-metabolite-metadata-file Volatiles_categories.txt
--m-metabolite-metadata-column Category
--p-level 2
--o-visualization mmvec-heatmap.qzv
metabolites_filtered.qza (456.6 KB)
zero_filtered_table.qza (191.9 KB)
Volatiles_categories.txt (7.6 KB)
Uploading: taxonomy.tsv...
