importing feature tables as Pandas df with artifact API

[thermokarst]

@hsapers

thanks @thermokarst!

You're welcome!

@hsapers

flipping between language kernels

Makes sense.

@hsapers

Are there similar q2.Artifact.import_data('FeatureTable[Frequency]', df) commands for tax tables?

Yes - Artifact.import_data! QIIME 2 uses a semantic type system to "label" all imported and generated data - the 'FeatureTable[Frequency]' bit is an example of a semantic type - you would read this as "a feature table of frequency". You can import a 'FeatureData[Taxonomy]' using the same mechanism shown above.

@hsapers

Or is it easier to subset the tax.qza using the feature table?

I don't follow, perhaps you can share a minimum working example?