Workshop on the preparation, execution, and analysis of protein molecular dynamics simulations
☆13May 7, 2025Updated last year
Alternatives and similar repositories for biosim-analysis-workshop
Users that are interested in biosim-analysis-workshop are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Automatically prepare structures from the PDB for molecular dynamics simulation☆15Updated this week
- ☆10Jul 11, 2021Updated 5 years ago
- ☆23Jul 29, 2026Updated 3 months ago
- A repository containing the build steps for the ccpbiosim workshop on Clustering.☆11Updated this week
- A set of benchmarks for biomolecular simulation tools☆14Mar 31, 2025Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- A repository providing jupyter notebooks and simulation inputs that accompany the mini course Hands-on tutorials: Advanced sampling metho…☆25Sep 26, 2024Updated 2 years ago
- VenusFold☆16Sep 14, 2026Updated last month
- Examples of applications of pymbar to various problems in simulation and experiment☆24Jan 16, 2015Updated 11 years ago
- A tool for setting up free energy simulations.☆37Oct 20, 2022Updated 4 years ago
- Parallelizable Gaussian Accelerated Molecular Dynamics☆11Mar 20, 2026Updated 7 months ago
- A conda-smithy repository for ambertools.☆13Updated this week
- some generic (but hopefully still useful) recommendations on writing your thesis☆11Mar 24, 2023Updated 3 years ago
- A heterogeneous OpenCL implementation of QuickVina2☆19Jan 7, 2023Updated 3 years ago
- A tutorials suite for BioSimSpace.☆37Oct 22, 2025Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- cryo_fit1 source codes, test files, live at .../phenix-xxxx/modules☆10Mar 25, 2022Updated 4 years ago
- Enabling energy landscape exploration of proteins☆10Dec 6, 2023Updated 2 years ago
- A tutorial for Streamlined Alchemical Free Energy Perturbations with NAMD☆17Apr 3, 2026Updated 7 months ago
- Force Distribution Analysis (FDA) for GROMACS☆37Jun 18, 2024Updated 2 years ago
- Python code to run Thermal Titration Molecular Dynamics (TTMD) simulations☆22Feb 25, 2026Updated 8 months ago
- EnzyDock: Protein–Ligand Docking of Multiple Reactive States along a Reaction Coordinate in Enzymes☆18Sep 5, 2024Updated 2 years ago
- ☆14Sep 18, 2023Updated 3 years ago
- A free energy command line tool using alchemlyb☆17Dec 11, 2022Updated 3 years ago
- The largest open-source dataset for Protein Single Sequence Secondary Structure prediction.☆15Sep 11, 2026Updated 2 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Interface enabling use of ANI-style, and other NN-IPs in the Amber molecular dynamics software suite. Works with both Amber engines, sand…☆18Oct 27, 2026Updated 2 weeks ago
- ☆17Jul 28, 2022Updated 4 years ago
- Analysis of non-covalent interactions in MD trajectories☆72Jan 3, 2025Updated last year
- Workshop - Analysis of Molecular Dynamics Simulation Using Python☆20Aug 14, 2020Updated 6 years ago
- ASGARD is a tool that allows via an automated MD workflow to perform MD protein or protein-ligand complex analysis and to generate the co…☆20Jul 11, 2024Updated 2 years ago
- Material for the 3rd i-CoMSE Workshop: Methods for Advanced Sampling☆43May 1, 2023Updated 3 years ago
- ☆21Mar 20, 2025Updated last year
- ☆23Oct 9, 2025Updated last year
- Python package for calculating configurational entropy from molecular dynamics simulations using the multiscale cell correlation method.☆11Updated this week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Rethinking Metadynamics: From Bias Potentials to Probability Distributions☆16Sep 18, 2023Updated 3 years ago
- A repository to keep code for interaction frequency work going forwards.☆11Mar 21, 2022Updated 4 years ago
- ☆17Sep 7, 2023Updated 3 years ago
- Some practical theoretic background needed for running MD simulations☆23Jun 2, 2026Updated 5 months ago
- Pharmacon: A Molecular Dynamics Analysis Toolkit☆25Oct 5, 2026Updated last month
- Longbow is a tool for automating simulations on a remote HPC machine. Longbow is designed to mimic the normal way an application is run l…☆18Nov 2, 2026Updated last week
- Atomic model based landscape analysis for cryo-EM☆10Apr 11, 2023Updated 3 years ago
Are these results useful?