A high performance drop-in replacement for Biotite's PDBFile written in Rust.

Installation

fastpdb can be installed via

Usage

You can simply replace biotite.structure.io.pdb.PDBFile by fastpdb.PDBFile. The methods and their parameters are the same.

import fastpdb

in_file = fastpdb.PDBFile.read("path/to/file.pdb")
atom_array = in_file.get_structure(model=1)

out_file = fastpdb.PDBFile()
out_file.set_structure(atom_array)
out_file.write("path/to/another_file.pdb")

Note that fastpdb does not yet support the hybrid-36 PDB format.

fastpdb is multiple times faster than biotite.