MDplot: Visualise Molecular Dynamics
☆30Mar 23, 2022Updated 3 years ago
Alternatives and similar repositories for MDplot
Users that are interested in MDplot are comparing it to the libraries listed below
Sorting:
- A convolutional neural network model to predict spatial charge map (SCM) score, a molecular dynamics simulation-based model to predict an…☆28Oct 6, 2022Updated 3 years ago
- ChemCharts is a module that allows you to plot chemical space in various figure types☆16Sep 24, 2023Updated 2 years ago
- ☆15Jun 26, 2018Updated 7 years ago
- Protocols and tools to run (automated) atomistic simulations of enzyme-ligand systems☆21Oct 11, 2021Updated 4 years ago
- ☆18Nov 10, 2021Updated 4 years ago
- ☆11Mar 28, 2024Updated last year
- Data visualizations for biomolecular dynamics☆17Oct 30, 2018Updated 7 years ago
- A Python package to generate free energy landscape (FEL) of molecular dynamics (MD) trajectory obtained from GROMACS. It also extracts th…☆14Apr 4, 2025Updated 11 months ago
- p-IgGen: A Generative Paired Antibody Language Model☆13May 6, 2025Updated 10 months ago
- Predict allosteric pockets on proteins☆15Mar 28, 2022Updated 3 years ago
- Generate Ramachandran plots for single PDB structure and as heatmap for MD trajectory☆11Apr 6, 2022Updated 3 years ago
- Package for reading, analysis and visualization of metadynamics HILLS☆39Nov 28, 2023Updated 2 years ago
- Prediction of protein melting temperatures directly from sequences☆12Apr 16, 2024Updated last year
- Tutorial on the setup and simulation of a membrane protein with AMBER Lipid21 and PACKMOL-Memgen☆74Aug 11, 2023Updated 2 years ago
- ☆13Apr 11, 2018Updated 7 years ago
- DeepSP is an antibody-specific surrogate CNN model that can generate 30 spatial properties of an antibody solely based on their sequences…☆19Feb 23, 2026Updated 3 weeks ago
- PCA and normal mode analysis of proteins☆20May 16, 2024Updated last year
- Antibody Langauge Ensemble Fusion - fuses antibody structural ensemble and language representation for property prediction☆13Apr 23, 2024Updated last year
- Molecular dynamics workflow framework in python.☆13Nov 15, 2022Updated 3 years ago
- How to analyze molecular dynamics data with PyEMMA☆84May 29, 2019Updated 6 years ago
- ☆32Feb 24, 2022Updated 4 years ago
- Python tutorial for estimating and clustering free energy landscapes with InfleCS.☆31May 6, 2022Updated 3 years ago
- Python implementation of the Ramachandran plot☆55Jul 20, 2025Updated 8 months ago
- Building and analyzing residue interaction networks with cofactors (includes tutorial).☆18Mar 31, 2021Updated 4 years ago
- A collection of scripts which I have developed to use GROMACS, for both compute clusters and post-simulation analysis.☆11Jul 15, 2014Updated 11 years ago
- Fully automated high-throughput MD pipeline☆89Mar 11, 2026Updated last week
- ☆12Aug 3, 2023Updated 2 years ago
- Learning free energy landscapes using artificial neural networks☆14Nov 30, 2017Updated 8 years ago
- PiViewer: an open-source tool for automated detection and display of pi-pi interactions☆14Jun 6, 2018Updated 7 years ago
- ☆22May 5, 2023Updated 2 years ago
- Automatic CHARMM-GUI browser interaction with Python☆18Mar 20, 2023Updated 2 years ago
- Automated molecular dynamics simulations workflow for high-throughput assessment of protein-ligand dynamics☆23Feb 2, 2024Updated 2 years ago
- Free Energy Landscape analysis tool.☆29Feb 15, 2025Updated last year
- Deep learning AI for generating new molecules that bond to the COVID-19.☆12Sep 17, 2020Updated 5 years ago
- Comprehensive Benchmark for Protein-Peptide Complex Structure Prediction with AlphaFold3☆19Sep 4, 2025Updated 6 months ago
- gmx_MMPBSA is a new tool based on AMBER's MMPBSA.py aiming to perform end-state free energy calculations with GROMACS files.☆300Dec 8, 2025Updated 3 months ago
- Python interface of cpptraj☆188Mar 6, 2026Updated last week
- ☆12Jul 22, 2025Updated 7 months ago
- ☆20Jun 26, 2020Updated 5 years ago