LICENSE
README.md
pyproject.toml
./nucleobench/__init__.py
./nucleobench/common/__init__.py
./nucleobench/common/argparse_lib.py
./nucleobench/common/attribution_lib_torch.py
./nucleobench/common/attribution_lib_torch_test.py
./nucleobench/common/constants.py
./nucleobench/common/gcp_utils.py
./nucleobench/common/memory_utils.py
./nucleobench/common/priority_queue.py
./nucleobench/common/priority_queue_test.py
./nucleobench/common/string_utils.py
./nucleobench/common/string_utils_test.py
./nucleobench/common/testing_utils.py
./nucleobench/common/testing_utils_test.py
./nucleobench/models/__init__.py
./nucleobench/models/bpnet/__init__.py
./nucleobench/models/bpnet/constants.py
./nucleobench/models/bpnet/load_model.py
./nucleobench/models/bpnet/model_def.py
./nucleobench/models/bpnet/model_def_test.py
./nucleobench/models/dummy/__init__.py
./nucleobench/models/dummy/model_def.py
./nucleobench/models/grelu/__init__.py
./nucleobench/models/grelu/constants.py
./nucleobench/models/grelu/constants_test.py
./nucleobench/models/grelu/model_def.py
./nucleobench/models/grelu/enformer/__init__.py
./nucleobench/models/grelu/enformer/constants.py
./nucleobench/models/grelu/enformer/model_def.py
./nucleobench/models/grelu/enformer/model_def_test.py
./nucleobench/models/malinois/__init__.py
./nucleobench/models/malinois/load_model.py
./nucleobench/models/malinois/model_def.py
./nucleobench/models/malinois/model_def_test.py
./nucleobench/models/malinois/model/__init__.py
./nucleobench/models/malinois/model/basset.py
./nucleobench/models/malinois/model/custom_layers.py
./nucleobench/models/malinois/model/loss_functions.py
./nucleobench/models/malinois/model/utils.py
./nucleobench/models/substring_count_net/__init__.py
./nucleobench/models/substring_count_net/model_def.py
./nucleobench/models/substring_count_net/model_def_test.py
./nucleobench/optimizations/__init__.py
./nucleobench/optimizations/model_class.py
./nucleobench/optimizations/optimization_class.py
./nucleobench/optimizations/utils.py
./nucleobench/optimizations/utils_test.py
./nucleobench/optimizations/ada/__init__.py
./nucleobench/optimizations/ada/ada_utils.py
./nucleobench/optimizations/ada/ada_utils_test.py
./nucleobench/optimizations/ada/adalead/__init__.py
./nucleobench/optimizations/ada/adalead/adalead_ref.py
./nucleobench/optimizations/ada/adalead/adalead_ref_test.py
./nucleobench/optimizations/beam_search/__init__.py
./nucleobench/optimizations/beam_search/beam_ordered.py
./nucleobench/optimizations/beam_search/beam_ordered_test.py
./nucleobench/optimizations/beam_search/beam_unordered.py
./nucleobench/optimizations/beam_search/beam_unordered_test.py
./nucleobench/optimizations/beam_search/beam_utils.py
./nucleobench/optimizations/beam_search/beam_utils_test.py
./nucleobench/optimizations/directed_evolution/__init__.py
./nucleobench/optimizations/directed_evolution/directed_evolution.py
./nucleobench/optimizations/directed_evolution/directed_evolution_module.py
./nucleobench/optimizations/directed_evolution/directed_evolution_module_test.py
./nucleobench/optimizations/dummy/__init__.py
./nucleobench/optimizations/dummy/random_perturbation.py
./nucleobench/optimizations/dummy/random_perturbation_test.py
./nucleobench/optimizations/fastseqprop_torch/__init__.py
./nucleobench/optimizations/fastseqprop_torch/fs.py
./nucleobench/optimizations/fastseqprop_torch/fs_test.py
./nucleobench/optimizations/fastseqprop_torch/fs_torch_module.py
./nucleobench/optimizations/fastseqprop_torch/fs_torch_module_test.py
./nucleobench/optimizations/ledidi/__init__.py
./nucleobench/optimizations/ledidi/ledidi.py
./nucleobench/optimizations/ledidi/ledidi_module.py
./nucleobench/optimizations/ledidi/ledidi_test.py
./nucleobench/optimizations/simulated_annealing/analysis.py
./nucleobench/optimizations/simulated_annealing/simulated_annealing.py
./nucleobench/optimizations/simulated_annealing/simulated_annealing_test.py
nucleobench/__init__.py
nucleobench.egg-info/PKG-INFO
nucleobench.egg-info/SOURCES.txt
nucleobench.egg-info/dependency_links.txt
nucleobench.egg-info/requires.txt
nucleobench.egg-info/top_level.txt
nucleobench/common/__init__.py
nucleobench/common/argparse_lib.py
nucleobench/common/attribution_lib_torch.py
nucleobench/common/attribution_lib_torch_test.py
nucleobench/common/constants.py
nucleobench/common/gcp_utils.py
nucleobench/common/memory_utils.py
nucleobench/common/priority_queue.py
nucleobench/common/priority_queue_test.py
nucleobench/common/string_utils.py
nucleobench/common/string_utils_test.py
nucleobench/common/testing_utils.py
nucleobench/common/testing_utils_test.py
nucleobench/models/__init__.py
nucleobench/models/bpnet/__init__.py
nucleobench/models/bpnet/constants.py
nucleobench/models/bpnet/load_model.py
nucleobench/models/bpnet/model_def.py
nucleobench/models/bpnet/model_def_test.py
nucleobench/models/dummy/__init__.py
nucleobench/models/dummy/model_def.py
nucleobench/models/grelu/__init__.py
nucleobench/models/grelu/constants.py
nucleobench/models/grelu/constants_test.py
nucleobench/models/grelu/model_def.py
nucleobench/models/grelu/enformer/__init__.py
nucleobench/models/grelu/enformer/constants.py
nucleobench/models/grelu/enformer/model_def.py
nucleobench/models/grelu/enformer/model_def_test.py
nucleobench/models/malinois/__init__.py
nucleobench/models/malinois/load_model.py
nucleobench/models/malinois/model_def.py
nucleobench/models/malinois/model_def_test.py
nucleobench/models/malinois/model/__init__.py
nucleobench/models/malinois/model/basset.py
nucleobench/models/malinois/model/custom_layers.py
nucleobench/models/malinois/model/loss_functions.py
nucleobench/models/malinois/model/utils.py
nucleobench/models/substring_count_net/__init__.py
nucleobench/models/substring_count_net/model_def.py
nucleobench/models/substring_count_net/model_def_test.py
nucleobench/optimizations/__init__.py
nucleobench/optimizations/model_class.py
nucleobench/optimizations/optimization_class.py
nucleobench/optimizations/utils.py
nucleobench/optimizations/utils_test.py
nucleobench/optimizations/ada/__init__.py
nucleobench/optimizations/ada/ada_utils.py
nucleobench/optimizations/ada/ada_utils_test.py
nucleobench/optimizations/ada/adalead/__init__.py
nucleobench/optimizations/ada/adalead/adalead_ref.py
nucleobench/optimizations/ada/adalead/adalead_ref_test.py
nucleobench/optimizations/beam_search/__init__.py
nucleobench/optimizations/beam_search/beam_ordered.py
nucleobench/optimizations/beam_search/beam_ordered_test.py
nucleobench/optimizations/beam_search/beam_unordered.py
nucleobench/optimizations/beam_search/beam_unordered_test.py
nucleobench/optimizations/beam_search/beam_utils.py
nucleobench/optimizations/beam_search/beam_utils_test.py
nucleobench/optimizations/directed_evolution/__init__.py
nucleobench/optimizations/directed_evolution/directed_evolution.py
nucleobench/optimizations/directed_evolution/directed_evolution_module.py
nucleobench/optimizations/directed_evolution/directed_evolution_module_test.py
nucleobench/optimizations/dummy/__init__.py
nucleobench/optimizations/dummy/random_perturbation.py
nucleobench/optimizations/dummy/random_perturbation_test.py
nucleobench/optimizations/fastseqprop_torch/__init__.py
nucleobench/optimizations/fastseqprop_torch/fs.py
nucleobench/optimizations/fastseqprop_torch/fs_test.py
nucleobench/optimizations/fastseqprop_torch/fs_torch_module.py
nucleobench/optimizations/fastseqprop_torch/fs_torch_module_test.py
nucleobench/optimizations/ledidi/__init__.py
nucleobench/optimizations/ledidi/ledidi.py
nucleobench/optimizations/ledidi/ledidi_module.py
nucleobench/optimizations/ledidi/ledidi_test.py
nucleobench/optimizations/simulated_annealing/analysis.py
nucleobench/optimizations/simulated_annealing/simulated_annealing.py
nucleobench/optimizations/simulated_annealing/simulated_annealing_test.py