Biophysics Python Packages

mmcif-pdbx

Yet another version of PDBx/mmCIF Python implementation

124K 9 2

pdb2pqr

PDB2PQR - determining titration states, adding missing atoms, and assigning charges/radii to biomolecules.

121K 169 44

synth-pdb

Generate realistic PDB files with mixed secondary structures for testing, education and bioinformatics tool development

5K 1 0

nrefocus

python library for numerical focusing (refocusing, autofocusing) of complex wave fields

4K 10 4

deeptrack

DeepTrack2 is a modular Python library for generating, manipulating, and analyzing image data pipelines for machine learning and experimental imaging.

4K 238 62

odtbrain

Algorithms for diffraction tomography

2K 55 13

deerpredict

A package for DEER and PRE predictions based on molecular dynamics ensembles. Can be installed with pip.

1K 14 4

aims-immune

A software for the analysis of immune repertoires

1K 10 5

proteuspy

proteusPy - Protein Structure Analysis and Modeling Tools

1K 2 0

pycapsid

A set of computational tools written in python for the analysis of viral capsids

1K 10 1

pyvertexmodel

3D vertex model allowing scutoids

831 3 0

polaritymodel

Code to investigate a polarity model of organ formation

725 0 0

kif

KIF - Key Interactions Finder. A python package to identify the key molecular interactions that regulate any conformational change.

636 35 4

frustration-gpu

Pure-PyTorch LAMMPS-AWSEM frustration analysis. 14-53x faster than frustrapy on a single GPU. Byte-comparable to frustratometeR.

630 1 0

papylio

Single-molecule fluorescence trace extraction and analysis

597 1 4

domb-napari

napari plugin for analyzing fluorescence-labeled proteins redistribution

506 1 0

bimato

Bio Matrix Topology (BiMaTo) is a library containing all the biopolymer matrix topology analyses published by the Biological Physics Group, (BIP), Peter Debye Institute, University Leipzig, Germany.

329 0 0