alphafoldmodel 1.0.3

A package of Python objects for parsing and interacting with Alphafold models.

AlphafoldModel is a package to parse Alphafold PDB structures and PAE Matrices into interactive Python objects.

The package contains the following classes:

• AlphafoldModel: Parses the Alphafold model PDB file alongside its JSON PAE matrix into an interactive Python object. It allows declarative queries for a model's local PAE and plDDT metrics.
• ModelPDB: ModelPDB is the base class that carries the PDB parsing functionalities as well as residue-based nearest-neighbour search methods.
• ModelPAE: ModelPAE is the base class that carries the PAE parsing functionalities for AlphafoldModel.
• LoadedKDTree: LoadedKDTree is a wrapper class which provides an interface over the scipy.spatial.KDTree class to instead store and return arbitrary objects with coordinate information.

Explore the source file in:

src/AlphafoldModel/alphafoldmodel

Installing

pip install alphafoldmodel