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Dependencies
- appdirs <2.0.0,>=1.4.4
- atomicwrites <2.0.0,>=1.4.0
- biopython <2.0,>=1.79
- celery <6.0.0,>=5.2.7
- flask-cors <4.0.0,>=3.0.10
- gensim <5.0.0,>=4.2.0
- gunicorn <21.0.0,>=20.1.0
- h5py <4.0.0,>=3.7.0
- humanize <5.0.0,>=4.1.0
- importlib-metadata <5.0.0,>=4.11.4
- lock <2019.0.0,>=2018.3.25
- matplotlib <4.0.0,>=3.5.2
- numpy <2.0.0,>=1.19.2
- pandas <2.0.0,>=1.4.2
- plotly <6.0.0,>=5.8.0
- python-slugify <7.0.0,>=6.1.2
- pyyaml ==6.0
- ruamel-yaml <0.18.0,>=0.17.10
- scikit-learn <2.0.0,>=1.1.1
- scipy <2.0.0,>=1.8.1
- sentencepiece ==0.1.96
- torch <=1.10.0,>=1.8.0
- tqdm <5.0.0,>=4.64.0
- umap-learn <0.6.0,>=0.5.3
- vespa-effect <2.0.0,>=1.0.0
- werkzeug ==2.0.3
14 optional dependencies
- bio-embeddings-allennlp[seqvec]
- bio-embeddings-bepler[bepler]
- bio-embeddings-cpcprot[cpcprot]
- bio-embeddings-deepblast[deepblast]
- bio-embeddings-plus[plus]
- bio-embeddings-tape-proteins[cpcprot]
- fair-esm[esm]
- flask[webserver]
- fsspec[deepblast]
- jaxlib[unirep]
- jax-unirep[unirep]
- pymongo[webserver]
- sentry-sdk[webserver]
- transformers[prottrans]