fastpdb
Advanced tools
.. image:: https://raw.githubusercontent.com/biotite-dev/fastpdb/main/logo.svg :width: 300 :align: center :alt: fastpdb
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A high performance drop-in replacement for Biotite's PDBFile
written in Rust.
fastpdb can be installed via
.. code-block:: console
$ pip install fastpdb
You can simply replace biotite.structure.io.pdb.PDBFile by
fastpdb.PDBFile. The methods and their parameters are the same.
.. code-block:: python
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.
.. image:: https://raw.githubusercontent.com/biotite-dev/fastpdb/main/benchmark.svg :width: 800 :align: center
FAQs
A high performance drop-in replacement for Biotite's PDBFile.
We found that fastpdb demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 2 open source maintainers collaborating on the project.
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