├── .gitignore ├── LICENSE.md ├── README.md ├── lib ├── __init__.py ├── acquisition_fn.py ├── dataset │ ├── __init__.py │ ├── base.py │ └── regression.py ├── generator │ ├── __init__.py │ ├── base.py │ └── gfn.py ├── logging.py ├── model │ └── mlp.py ├── oracle_wrapper.py ├── proxy │ ├── __init__.py │ └── regression.py └── utils │ ├── __init__.py │ ├── distance.py │ └── env.py ├── requirements.txt ├── run_amp.py ├── run_gfp.py └── run_tfbind.py /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/.gitignore -------------------------------------------------------------------------------- /LICENSE.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/LICENSE.md -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/README.md -------------------------------------------------------------------------------- /lib/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /lib/acquisition_fn.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/acquisition_fn.py -------------------------------------------------------------------------------- /lib/dataset/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/dataset/__init__.py -------------------------------------------------------------------------------- /lib/dataset/base.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/dataset/base.py -------------------------------------------------------------------------------- /lib/dataset/regression.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/dataset/regression.py -------------------------------------------------------------------------------- /lib/generator/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/generator/__init__.py -------------------------------------------------------------------------------- /lib/generator/base.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/generator/base.py -------------------------------------------------------------------------------- /lib/generator/gfn.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/generator/gfn.py -------------------------------------------------------------------------------- /lib/logging.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/logging.py -------------------------------------------------------------------------------- /lib/model/mlp.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/model/mlp.py -------------------------------------------------------------------------------- /lib/oracle_wrapper.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/oracle_wrapper.py -------------------------------------------------------------------------------- /lib/proxy/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/proxy/__init__.py -------------------------------------------------------------------------------- /lib/proxy/regression.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/proxy/regression.py -------------------------------------------------------------------------------- /lib/utils/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /lib/utils/distance.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/utils/distance.py -------------------------------------------------------------------------------- /lib/utils/env.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/lib/utils/env.py -------------------------------------------------------------------------------- /requirements.txt: -------------------------------------------------------------------------------- 1 | setuptools==59.5.0 2 | biopython 3 | polyleven 4 | -------------------------------------------------------------------------------- /run_amp.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/run_amp.py -------------------------------------------------------------------------------- /run_gfp.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/run_gfp.py -------------------------------------------------------------------------------- /run_tfbind.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/MJ10/BioSeq-GFN-AL/HEAD/run_tfbind.py --------------------------------------------------------------------------------