APBS - software for biomolecular electrostatics and solvation
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Updated
Jul 27, 2020
APBS - software for biomolecular electrostatics and solvation
PDB2PQR - determining titration states, adding missing atoms, and assigning charges/radii to biomolecules.
Software for biomolecular electrostatics and solvation calculations
A Python platform for Structural Bioinformatics
PENSA - a collection of python methods for exploratory analysis and comparison of biomolecular conformational ensembles.
Modeling molecular ensembles with scalable data structures and parallel computing
Analysis of non-covalent interactions in MD trajectories
The Open Free Energy toolkit
Collection of Python scripts to setup and run simulations with OpenMM
A python library for advanced lattice light-sheet image analysis
DeepDriveMD: Deep-Learning Driven Adaptive Molecular Simulations
Web server and RESTful backend services for APBS and PDB2PQR
A Python package to conduct 3D Traction Force Microscopy on multicellular aggregates (spheroids).
Python library for diffraction tomography with the Born and Rytov approximations
EP-PINNs implementation for 1D and 2D forward and inverse solvers for the Aliev-Panfilov cardiac electrophysiology model. Also includes Matlab finite-differences solver for data generation.
Oil Palm Growth and Yield Model
Pras Server is a library to repair PDB or mmCIF structures, add missing heavy atoms and hydrogen atoms and assign secondary structure by amide-amide interactions of the backbone
Robust and stable clustering of molecular dynamics simulation trajectories.
a Living ENsemble Simulator -- a lens to help you watch biophysics
Introductory Git Repository for the Biophysics Research Group at BYU
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