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github.com/KexinZhangResearch/PhysDock @main

670 symbols 2,093 edges 71 files 245 documented · 37% ● updated 11mo agoRelease · 2025-08-26★ 936 open issues

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⨍ Functions 573◇ Types & classes 97

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Core symbols most depended-on inside this repo

↓ 12 filesRotation

A 3D rotation. Depending on how the object is initialized, the rotation is represented by either a rotation matrix or a …

PhysDock/utils/rigid_utils.py

↓ 8 filesLinear

A Linear layer with built-in nonstandard initializations. Called just like torch.nn.Linear. Implements the initializers in …

PhysDock/models/primitives/linear.py

↓ 8 filesload_txt

PhysDock/utils/io_utils.py

↓ 8 filesconvert_md5_string

PhysDock/utils/io_utils.py

↓ 5 filesparse_fasta

Parses FASTA string and returns list of strings with amino-acid sequences. Arguments: fasta_string: The string contents of a …

PhysDock/data/tools/parsers.py

↓ 5 filesdump_txt

PhysDock/utils/io_utils.py

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Method 292

Function 281

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PhysDock/utils/rigid_utils.py69 symbols

PhysDock/data/tools/templates.py43 symbols

PhysDock/utils/tensor_utils.py40 symbols

PhysDock/models/layers/transformers.py37 symbols

tasks/unicore_train/__init__.py25 symbols

PhysDock/data/tools/parsers.py25 symbols

PhysDock/data/feature_loader_plinder.py25 symbols

PhysDock/models/loss_module3.py21 symbols

PhysDock/models/loss_module2.py21 symbols

PhysDock/models/loss_module.py21 symbols

PhysDock/data/tools/dataset_manager.py21 symbols

PhysDock/data/tools/mmcif_parsing.py20 symbols

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$ claude mcp add PhysDock \
  -- python -m otcore.mcp_server <graph>

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github.com/KexinZhangResearch/PhysDock @main

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