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Domains as words, genomes as documents.

Project description


Name inspired by fastText.

Run tests:

cd .../nanotext/
pytest  # or python test
TODO: turn embedding in gensim fmt into something similar to glove (bin?)
would then be easier to train/ unfreeze and then save again, to be loaded w/ some model eg for PUL prediction

nanotext compute

takes annotation (load domains) and our model and computes vector

nanotext train corpus model

nanotext compare ...

nanotext search ...

nanotext taxonomy (calculate a gtdb based taxonomy and get closest functional genome and use that or distance)

like sourmash really

check sourmash publication

nanotext predict model=medium
nanotext predict model=pul

Project details

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