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sacdallago / bio_embeddings

Get protein embeddings from protein sequences
http://docs.bioembeddings.com
MIT License
463 stars 65 forks source link

Add merck/sapiens #187

Open sacdallago opened 2 years ago

sacdallago commented 2 years ago

https://github.com/merck/sapiens

prihoda commented 2 years ago

Hi @sacdallago thanks for tracking this. Note that we also have this ticket: https://github.com/sacdallago/bio_embeddings/issues/171

Sapiens is now on pypi: https://pypi.org/project/sapiens/

Python 3.7 or 3.8 is currently required, installing for Python 3.9 and higher is broken due to fairseq bug: https://github.com/pytorch/fairseq/issues/3535

Some infilling and embedding examples are found in notebooks dir: https://github.com/Merck/Sapiens/tree/main/notebooks

Btw, AbLang (from @TobiasHeOl) depends on the same libraries: https://github.com/oxpig/AbLang/