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Dependencies
- aiohttp >=3.8.0
- aiosignal
- async-timeout
- attrs
- axial-positional-embedding
- beautifulsoup4 >=4.9.0
- biopython ~=1.85
- biothings-client >=0.2.0
- biotite
- bottleneck
- cachetools
- cffi
- charset-normalizer >=2.0.0
- colorama >=0.4.4
- contextlib2 >=21.0.0
- contourpy >=1.0.0
- cycler >=0.11.0
- cython
- dm-tree
- einops >=0.4.0
- fair-esm
- filelock
- fonttools >=4.30.0
- frozenlist
- future
- hf-xet
- huggingface-hub
- hydra-core >=1.0.0
- idna >=3.0
- importlib-metadata
- importlib-resources
- joblib >=1.0.0
- llvmlite
- local-attention
- lxml
- matplotlib >=3.5.0
- ml-collections >=0.1.0
- more-itertools
- mygene >=3.2.0
- numba
- numexpr
- numpy ~=2.2.5
- omegaconf >=2.0.0
- opencv-python
- openmm
- packaging >=21.0
- pandas >=1.3.0
- pandas-datareader
- performer-pytorch
- pillow >=9.0.0
- pluggy
- protobuf
- psutil
- py
- pycparser
- pydantic >=2.5.0
- pydantic-settings >=2.1.0
- pyparsing >=3.0.0
- python-box >=6.0.0
- python-dateutil >=2.8.0
- pytorch-ignite >=0.4.6
- pytorch-lightning
- pyyaml >=6.0.0
- qmllib
- regex
- requests >=2.26.0
- rna-fm
- sacremoses
- scikit-learn >=0.24.0
- scipy >=1.12.0
- seaborn
- setuptools
- six >=1.15.0
- tabulate >=0.8.9
- tape-proteins
- tokenizers
- torch
- torchaudio
- torch-cluster
- torch-geometric
- torchmetrics
- torch-scatter
- torchsummary
- torchvision
- tqdm >=4.60.0
- transformers
- typing-extensions
- urllib3 >=1.26.0
- wheel
- yarl
81 optional dependencies
- absl-py[dev]
- aiohttp[web]
- aiosignal[web]
- async-timeout[web]
- autopep8[dev]
- bleach[jupyter]
- boto3[cloud]
- botocore[cloud]
- build[dev]
- charset-normalizer[web]
- contourpy[visualization]
- cryptography[cloud]
- cycler[visualization]
- decorator[dev]
- defusedxml[jupyter]
- entrypoints[dev]
- flake8[dev]
- fonttools[visualization]
- frozenlist[web]
- google-auth[cloud]
- google-auth-oauthlib[cloud]
- idna[web]
- ipykernel[jupyter]
- ipympl[jupyter]
- ipython[jupyter]
- ipython-genutils[dev]
- ipywidgets[jupyter]
- jedi[dev]
- jmespath[dev]
- jsonschema[jupyter]
- jupyter[jupyter]
- jupyter-client[jupyter]
- jupyter-console[jupyter]
- jupyter-core[jupyter]
- jupyterlab[jupyter]
- jupyterlab-widgets[jupyter]
- jupytext[jupyter]
- markdown[jupyter]
- mistune[jupyter]
- monkeytype[dev]
- mypy[dev]
- mypy-extensions[dev]
- nbclient[jupyter]
- nbconvert[jupyter]
- nbformat[jupyter]
- nest-asyncio[jupyter]
- oauthlib[cloud]
- opencv-python[visualization]
- pandocfilters[jupyter]
- parso[dev]
- pre-commit[dev]
- prometheus-client[jupyter]
- prompt-toolkit[dev]
- pycodestyle[dev]
- pyflakes[dev]
- pygments[jupyter]
- pylint[dev]
- pyopenssl[cloud]
- pyrsistent[jupyter]
- pysocks[cloud]
- pytest[dev]
- pytest-cov[dev]
- requests-oauthlib[cloud]
- rsa[cloud]
- s3transfer[cloud]
- send2trash[jupyter]
- tensorboard[dev]
- tensorboard-data-server[dev]
- tensorboard-plugin-wit[dev]
- tensorboardx[dev]
- terminado[jupyter]
- testpath[jupyter]
- tqdm[dev]
- traitlets[dev]
- twine[dev]
- typed-ast[dev]
- urllib3[web]
- wcwidth[dev]
- webencodings[jupyter]
- widgetsnbextension[jupyter]
- yarl[web]