Tools for assessing convergence of Molecular Dynamics simulations by error analysis of calculated ensemble averages and free energies
☆15Jan 4, 2024Updated 2 years ago
Alternatives and similar repositories for BLOCKING
Users that are interested in BLOCKING are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Official repo of the Biomeccanica Multiscala course (prof. Marco A. Deriu) - Master Degree in Biomedical engineering, Politecnico di Tori…☆12Jan 2, 2025Updated last year
- A docker image containing changes applied to the ETKDG conformer generator workflow, with example scripts.☆13Jun 15, 2019Updated 7 years ago
- COSMO: COarse-grained Simulation of intrinsically disordered prOteins with openMM☆15Jul 14, 2026Updated 3 months ago
- Copernicus☆18Oct 27, 2017Updated 8 years ago
- A general repository for additional supporting data for manuscripts published from the Holehouse lab☆14Aug 29, 2026Updated last month
- 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.
- ☆21Apr 7, 2025Updated last year
- PyDock Tutorial☆37Jul 2, 2018Updated 8 years ago
- An efficient approach to RMSD-Based HDBSCAN Clustering of long Molecular Dynamics☆18Sep 11, 2022Updated 4 years ago
- Source code for "Nucleosome plasticity is a critical element of chromatin liquid–liquid phase separation and multivalent nucleosome inter…☆13Jun 17, 2022Updated 4 years ago
- Software for the prediction of FRET data from conformational ensembles.☆24Dec 19, 2024Updated last year
- Tutorials on doing AMBER based Metadynamics and Gaussian Accelerated MD (GaMD)☆13Dec 1, 2025Updated 10 months ago
- rid☆25Aug 15, 2021Updated 5 years ago
- ☆50Mar 7, 2026Updated 7 months ago
- A scoring function model based on 3D convolutional neural network for protein-ligand binding affinity prediction.☆17Oct 8, 2021Updated 5 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Material from papers from KULL centre☆71May 29, 2024Updated 2 years ago
- VMD plugin to calculate and visualize clusters of conformations for a trajectory☆25Oct 24, 2018Updated 7 years ago
- Demo of diffusion models #DDPM applied to molecular dynamics of small peptide☆14Jan 26, 2024Updated 2 years ago
- Convenience functions for VMD-TCL scripting☆14Apr 3, 2026Updated 6 months ago
- Gromacs_py is a python library allowing a simplified use of the gromacs MD simulation software. Gromacs_py can build topologie based on a…☆53Jul 5, 2022Updated 4 years ago
- A tool for visualizing Martini force field simulations in VMD☆28May 11, 2026Updated 5 months ago
- PARENT: a parallel software suite for the calculation of configurational entropy in biomolecular systems☆16Jan 20, 2022Updated 4 years ago
- Finds cryptic binding pockets that are invisible in a single static structure. Generates a conformational ensemble, detects pockets in ev…☆89Sep 17, 2026Updated last month
- Software package for FEP☆24Aug 7, 2026Updated 2 months ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Weighted Ensemble Data Analysis and Plotting☆27Jul 17, 2026Updated 3 months ago
- The scripts for Gen-COMPAS framework☆79Sep 20, 2026Updated 3 weeks ago
- Machine learning for molecular dynamics☆13Jan 9, 2025Updated last year
- Useful Collective Variables for OpenMM☆19Updated this week
- ☆13Jul 17, 2025Updated last year
- ☆49Feb 17, 2026Updated 8 months ago
- Get access to our MD data files.☆34Nov 22, 2023Updated 2 years ago
- Open source code for DyScore☆20Jan 9, 2023Updated 3 years ago
- A Python library for constructing polymer topologies and coordinates☆24Sep 23, 2025Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆19Sep 30, 2025Updated last year
- Accelerating Metadynamics-Based Free-Energy Calculations with Adaptive Machine Learning Potentials☆18Jun 9, 2021Updated 5 years ago
- Statistical Analysis of Docking Results and Scoring functions☆21Sep 17, 2026Updated last month
- ☆20Sep 14, 2022Updated 4 years ago
- ☆28Jan 9, 2024Updated 2 years ago
- ☆15Jun 26, 2018Updated 8 years ago
- A curated list of awesome Molecular Modeling And Drug Discovery 🔥