.codespell-whitelist.txt
.gitignore
.pre-commit-config.yaml
LICENSE
LICENSE.header
README.md
README.zh.md
conftest.py
licensing.sh
pyproject.toml
setup.py
tox.ini
.github/merge_rules.yaml
.github/workflows/push.yaml
demo/direct-access.py
demo/multimolecule-automodel.py
demo/transformers-automodel.py
demo/vanilla.py
docs/mkdocs.yml
docs/requirements.txt
docs/docs/CNAME
docs/docs/index.md
docs/docs/index.zh.md
docs/docs/models.md
docs/docs/models.zh.md
docs/docs/module.md
docs/docs/module.zh.md
docs/docs/tokenisers.md
docs/docs/tokenisers.zh.md
docs/docs/models/calm.md
docs/docs/models/configuration_utils.md
docs/docs/models/ernierna.md
docs/docs/models/modeling_outputs.md
docs/docs/models/rinalmo.md
docs/docs/models/rnabert.md
docs/docs/models/rnaernie.md
docs/docs/models/rnafm.md
docs/docs/models/rnamsm.md
docs/docs/models/splicebert.md
docs/docs/models/utrbert.md
docs/docs/models/utrlm.md
docs/docs/module/embeddings.md
docs/docs/module/embeddings.zh.md
docs/docs/module/heads.md
docs/docs/module/heads.zh.md
docs/docs/tokenisers/dna.md
docs/docs/tokenisers/protein.md
docs/docs/tokenisers/rna.md
docs/docs/tokenisers/dna/alphabet.md
docs/docs/tokenisers/protein/alphabet.md
docs/docs/tokenisers/rna/alphabet.md
docs/overrides/main.html
docs/overrides/assets/css/extra.css
docs/overrides/assets/css/fonts.css
docs/overrides/assets/fonts/CascadiaCodePL.woff2
docs/overrides/assets/fonts/HYQiHei.ttf
docs/overrides/assets/fonts/HelveticaNowDisplay.otf
docs/overrides/assets/fonts/HelveticaWorld.ttf
docs/overrides/assets/images/favicon.ico
docs/overrides/assets/images/logo.png
docs/overrides/javascripts/mathjax.js
docs/overrides/javascripts/shortcuts.js
multimolecule/__init__.py
multimolecule/_version.py
multimolecule.egg-info/PKG-INFO
multimolecule.egg-info/SOURCES.txt
multimolecule.egg-info/dependency_links.txt
multimolecule.egg-info/requires.txt
multimolecule.egg-info/top_level.txt
multimolecule/models/README.md
multimolecule/models/README.zh.md
multimolecule/models/__init__.py
multimolecule/models/configuration_utils.py
multimolecule/models/conversion_utils.py
multimolecule/models/modeling_auto.py
multimolecule/models/modeling_outputs.py
multimolecule/models/calm/README.md
multimolecule/models/calm/__init__.py
multimolecule/models/calm/configuration_calm.py
multimolecule/models/calm/convert_checkpoint.py
multimolecule/models/calm/modeling_calm.py
multimolecule/models/ernierna/README.md
multimolecule/models/ernierna/__init__.py
multimolecule/models/ernierna/configuration_ernierna.py
multimolecule/models/ernierna/convert_checkpoint.py
multimolecule/models/ernierna/modeling_ernierna.py
multimolecule/models/rinalmo/README.md
multimolecule/models/rinalmo/__init__.py
multimolecule/models/rinalmo/configuration_rinalmo.py
multimolecule/models/rinalmo/convert_checkpoint.py
multimolecule/models/rinalmo/modeling_rinalmo.py
multimolecule/models/rnabert/README.md
multimolecule/models/rnabert/__init__.py
multimolecule/models/rnabert/configuration_rnabert.py
multimolecule/models/rnabert/convert_checkpoint.py
multimolecule/models/rnabert/modeling_rnabert.py
multimolecule/models/rnaernie/README.md
multimolecule/models/rnaernie/__init__.py
multimolecule/models/rnaernie/configuration_rnaernie.py
multimolecule/models/rnaernie/convert_checkpoint.py
multimolecule/models/rnaernie/modeling_rnaernie.py
multimolecule/models/rnafm/README.md
multimolecule/models/rnafm/__init__.py
multimolecule/models/rnafm/configuration_rnafm.py
multimolecule/models/rnafm/convert_checkpoint.py
multimolecule/models/rnafm/modeling_rnafm.py
multimolecule/models/rnamsm/README.md
multimolecule/models/rnamsm/__init__.py
multimolecule/models/rnamsm/configuration_rnamsm.py
multimolecule/models/rnamsm/convert_checkpoint.py
multimolecule/models/rnamsm/modeling_rnamsm.py
multimolecule/models/splicebert/README.md
multimolecule/models/splicebert/__init__.py
multimolecule/models/splicebert/configuration_splicebert.py
multimolecule/models/splicebert/convert_checkpoint.py
multimolecule/models/splicebert/modeling_splicebert.py
multimolecule/models/utrbert/README.md
multimolecule/models/utrbert/__init__.py
multimolecule/models/utrbert/configuration_utrbert.py
multimolecule/models/utrbert/convert_checkpoint.py
multimolecule/models/utrbert/modeling_utrbert.py
multimolecule/models/utrlm/README.md
multimolecule/models/utrlm/__init__.py
multimolecule/models/utrlm/configuration_utrlm.py
multimolecule/models/utrlm/convert_checkpoint.py
multimolecule/models/utrlm/modeling_utrlm.py
multimolecule/module/README.md
multimolecule/module/README.zh.md
multimolecule/module/__init__.py
multimolecule/module/criterions/__init__.py
multimolecule/module/criterions/generic.py
multimolecule/module/embeddings/README.md
multimolecule/module/embeddings/README.zh.md
multimolecule/module/embeddings/__init__.py
multimolecule/module/embeddings/registry.py
multimolecule/module/embeddings/rotary.py
multimolecule/module/embeddings/sinusoidal.py
multimolecule/module/heads/README.md
multimolecule/module/heads/README.zh.md
multimolecule/module/heads/__init__.py
multimolecule/module/heads/config.py
multimolecule/module/heads/contact.py
multimolecule/module/heads/generic.py
multimolecule/module/heads/nucleotide.py
multimolecule/module/heads/output.py
multimolecule/module/heads/pretrain.py
multimolecule/module/heads/registry.py
multimolecule/module/heads/sequence.py
multimolecule/module/heads/token.py
multimolecule/module/heads/transform.py
multimolecule/module/heads/utils.py
multimolecule/tokenisers/README.md
multimolecule/tokenisers/README.zh.md
multimolecule/tokenisers/__init__.py
multimolecule/tokenisers/alphabet.py
multimolecule/tokenisers/tokenization_utils.py
multimolecule/tokenisers/utils.py
multimolecule/tokenisers/dna/ALPHABET.md
multimolecule/tokenisers/dna/README.md
multimolecule/tokenisers/dna/__init__.py
multimolecule/tokenisers/dna/tokenization_dna.py
multimolecule/tokenisers/dna/utils.py
multimolecule/tokenisers/protein/ALPHABET.md
multimolecule/tokenisers/protein/README.md
multimolecule/tokenisers/protein/__init__.py
multimolecule/tokenisers/protein/tokenization_protein.py
multimolecule/tokenisers/protein/utils.py
multimolecule/tokenisers/rna/ALPHABET.md
multimolecule/tokenisers/rna/README.md
multimolecule/tokenisers/rna/__init__.py
multimolecule/tokenisers/rna/tokenization_rna.py
multimolecule/tokenisers/rna/utils.py
multimolecule/utils/__init__.py
multimolecule/utils/parameters.py