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Index
A
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B
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C
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D
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E
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F
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G
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I
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L
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M
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N
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O
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P
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R
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S
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T
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U
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V
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W
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Z
A
add_protein_attributes() (Dataset method)
(EnzymeCommissionDataset method)
(GeneOntologyDataset method)
(ProteinFamilyDataset method)
(ProteinLigandDecoysDataset method)
(ProteinLigandInterfaceDataset method)
(SCOPDataset method)
affinity_parse() (ProteinLigandInterfaceDataset method)
align_structures() (TMAlignDataset method)
AlphaFoldDataset (class in proteinshake.datasets)
B
BindingSiteDetectionTask (class in proteinshake.tasks)
C
CenterTransform (class in proteinshake.transforms)
chain_split() (ProteinProteinInterfaceDataset method)
check_signature_same_as_hosted() (Dataset method)
compose_embeddings() (in module proteinshake.utils)
compute_pairs() (ProteinProteinInterfaceTask method)
convert_to_framework() (FrameworkDataset method)
D
Dataset (class in proteinshake.datasets)
DGLGraphDataset (class in proteinshake.frameworks.dgl)
download() (AlphaFoldDataset method)
(Dataset method)
(GeneOntologyDataset method)
(ProteinLigandDecoysDataset method)
(ProteinLigandInterfaceDataset method)
(ProteinProteinInterfaceDataset method)
(RCSBDataset method)
(SCOPDataset method)
download_url() (in module proteinshake.utils)
E
EnzymeClassTask (class in proteinshake.tasks)
EnzymeCommissionDataset (class in proteinshake.datasets)
extract_tar() (in module proteinshake.utils)
F
FrameworkDataset (class in proteinshake.frameworks.dataset)
G
GeneOntologyDataset (class in proteinshake.datasets)
GeneOntologyTask (class in proteinshake.tasks)
get() (FrameworkDataset method)
get_contacts() (ProteinProteinInterfaceDataset method)
GraphDataset (class in proteinshake.representations)
I
IdentityTransform (class in proteinshake.transforms)
L
len() (FrameworkDataset method)
LigandAffinityTask (class in proteinshake.tasks)
load() (in module proteinshake.utils)
load_transform() (FrameworkDataset method)
(TensorflowVoxelDataset method)
(TorchVoxelDataset method)
M
module
proteinshake.datasets
proteinshake.frameworks.dataset
proteinshake.frameworks.dgl
proteinshake.frameworks.np
proteinshake.frameworks.nx
proteinshake.frameworks.pyg
proteinshake.frameworks.tf
proteinshake.frameworks.torch
proteinshake.representations
proteinshake.tasks
proteinshake.transforms
proteinshake.utils
N
NetworkxGraphDataset (class in proteinshake.frameworks.nx)
NumpyPointDataset (class in proteinshake.frameworks.np)
NumpyVoxelDataset (class in proteinshake.frameworks.np)
O
onehot() (in module proteinshake.utils)
P
parse() (Dataset method)
parse_interfaces() (ProteinProteinInterfaceDataset method)
parse_pdb() (Dataset method)
parse_pdbbind_PL_index() (ProteinLigandInterfaceDataset method)
pdb2df() (Dataset method)
(ProteinLigandDecoysDataset method)
PointDataset (class in proteinshake.representations)
positional_encoding() (in module proteinshake.utils)
ProteinFamilyDataset (class in proteinshake.datasets)
ProteinFamilyTask (class in proteinshake.tasks)
ProteinLigandDecoysDataset (class in proteinshake.datasets)
ProteinLigandInterfaceDataset (class in proteinshake.datasets)
ProteinProteinInterfaceDataset (class in proteinshake.datasets)
ProteinProteinInterfaceTask (class in proteinshake.tasks)
proteins() (Dataset method)
proteinshake.datasets
module
proteinshake.frameworks.dataset
module
proteinshake.frameworks.dgl
module
proteinshake.frameworks.np
module
proteinshake.frameworks.nx
module
proteinshake.frameworks.pyg
module
proteinshake.frameworks.tf
module
proteinshake.frameworks.torch
module
proteinshake.representations
module
proteinshake.tasks
module
proteinshake.transforms
module
proteinshake.utils
module
PygGraphDataset (class in proteinshake.frameworks.pyg)
R
RandomRotateTransform (class in proteinshake.transforms)
RCSBDataset (class in proteinshake.datasets)
S
save() (in module proteinshake.utils)
SCOPDataset (class in proteinshake.datasets)
StructuralClassTask (class in proteinshake.tasks)
StructureSearchTask (class in proteinshake.tasks)
StructureSimilarityTask (class in proteinshake.tasks)
T
targets (StructureSearchTask property)
Task (class in proteinshake.tasks)
TensorflowPointDataset (class in proteinshake.frameworks.tf)
TensorflowVoxelDataset (class in proteinshake.frameworks.tf)
TMAlignDataset (class in proteinshake.datasets)
to_graph() (Dataset method)
to_point() (Dataset method)
to_voxel() (Dataset method)
tokenize() (in module proteinshake.utils)
TorchPointDataset (class in proteinshake.frameworks.torch)
TorchVoxelDataset (class in proteinshake.frameworks.torch)
Transform (class in proteinshake.transforms)
U
unzip_file() (in module proteinshake.utils)
update_index() (ProteinProteinInterfaceTask method)
(StructureSimilarityTask method)
V
VirtualScreenTask (class in proteinshake.tasks)
VoxelDataset (class in proteinshake.representations)
W
write_avro() (in module proteinshake.utils)
Z
zip_file() (in module proteinshake.utils)