molecularmodelingsection / TTMDLinks
Python code to run Thermal Titration Molecular Dynamics (TTMD) simulations
☆20Updated last year
Alternatives and similar repositories for TTMD
Users that are interested in TTMD are comparing it to the libraries listed below
Sorting:
- ☆53Updated 8 months ago
- Cryptic pocket prediction using AlphaFold 2☆24Updated 3 years ago
- ☆13Updated 2 years ago
- CosolvKit is a versatile tool for cosolvent MD preparation and analysis☆28Updated 2 months ago
- The Guest HOst Affinity Tool (GHOAT.py) is a fully automated tool for absolute binding free energy calculations on guest-host systems.☆21Updated 8 months ago
- Fully automated high-throughput MD pipeline☆86Updated last week
- Workflow to clean up and fix structural problems in protein-ligand binding datasets☆66Updated 2 months ago
- Knowledge-Guided Diffusion Model for 3D Ligand-Pharmacophore Mapping☆46Updated 7 months ago
- ☆26Updated 11 months ago
- Binding pocket optimization based on force fields and docking scoring functions☆37Updated 9 months ago
- ☆45Updated last month
- Python package built on NAMD/OpenMM and OpenMMTools to perform binding free energy calculations using the TIES protocol.☆34Updated 2 years ago
- DSDPFlex: Flexible-Receptor Docking with GPU Acceleration☆23Updated 3 weeks ago
- Computational Chemistry Workflows☆56Updated 3 years ago
- PROTACable is an end-to-end in-silico design toolkit for novel PROTACs☆29Updated last year
- Boltzmann-ranked alternative protein conformations from reduced-MSA AlphaFold2☆60Updated last month
- This is a SnakeMake based workflow for ABFE calculations that can be easily scaled in a high-throughput manner via Slurm for example.☆60Updated last month
- moldrug (AKA mouse) is a Python package for drug-oriented optimization on the chemical space ☆39Updated 2 months ago
- ☆48Updated this week
- ☆25Updated 2 years ago
- Tool to predict water molecules placement and energy in ligand binding sites☆35Updated 4 months ago
- A Multi-Task Generative model for Structure-Based Drug Design☆56Updated this week
- Free Parametrization for Small Molecules☆50Updated 3 months ago
- A snakemake-based workflow for FEP and MM(PB/GB)SA calculations with GROMACS☆135Updated last month
- ☆32Updated 2 years ago
- Lightweight induced fit docking☆21Updated 2 years ago
- Weighted Ensemble Data Analysis and Plotting☆25Updated last month
- Simulation-Enabled Estimation of Kinetic Rates - Version 2☆34Updated last month
- A tutorials suite for BioSimSpace.☆33Updated 2 months ago
- Software for automated analysis of molecular dynamics trajectories☆51Updated last month