|
NPT steps warnings
|
|
0
|
7
|
January 22, 2025
|
|
Continuation in mdp file for umbrella sampling
|
|
2
|
25
|
January 21, 2025
|
|
Constraints Option with Flat-Bottom Position Restraints in mdp file
|
|
2
|
12
|
January 20, 2025
|
|
Questions About CHARMM36 Parameters for DNA Systems
|
|
2
|
23
|
January 17, 2025
|
|
Nanoparticle getting disintegrated in MD production after simulated annealing
|
|
0
|
11
|
January 17, 2025
|
|
Default value of gen-vel option in gromacs MDP file
|
|
5
|
33
|
January 17, 2025
|
|
Estimated Oscillation Time period less than timestep
|
|
4
|
21
|
January 15, 2025
|
|
Missing define in .mdp Extracted from .tpr and Restraint Confirmation
|
|
4
|
16
|
January 10, 2025
|
|
Pressure application to separate oil in water through amorphous polymer membrane
|
|
9
|
42
|
January 10, 2025
|
|
Tau values for equilibration
|
|
3
|
18
|
January 9, 2025
|
|
Equilibrating for 10 fs - mdp file
|
|
3
|
13
|
January 7, 2025
|
|
NVT simulation and mdp file
|
|
2
|
22
|
January 7, 2025
|
|
Stability for long NVE run
|
|
2
|
12
|
January 6, 2025
|
|
Custom exclusion of only coulomb interaction
|
|
2
|
18
|
January 5, 2025
|
|
MD simulation of Docked structures
|
|
2
|
59
|
December 30, 2024
|
|
The final step in the tutorial on protein and ligand binding
|
|
0
|
10
|
December 24, 2024
|
|
1-4 interactions not tallying
|
|
0
|
7
|
December 20, 2024
|
|
Should I use two T-coupling groups for ice+graphene?
|
|
9
|
20
|
December 20, 2024
|
|
Drift of the system in the periodic box during simulations
|
|
2
|
27
|
December 17, 2024
|
|
Benchmarking GROMACS 2023 using STMV - PME rank outside cutoff of domain decomposition
|
|
1
|
32
|
December 16, 2024
|
|
Implemetation of Nose-Hoover Langevin piston pressure control in Gromacs
|
|
1
|
15
|
December 16, 2024
|
|
Equivalent Thermostat to Langevin in GROMACS for MD Simulations
|
|
2
|
30
|
December 12, 2024
|
|
Error in running CG commands
|
|
1
|
18
|
December 6, 2024
|
|
Error about umbrella sampling(pulling simulation)
|
|
1
|
21
|
December 5, 2024
|
|
Atom Type Error in Gromacs
|
|
0
|
12
|
December 3, 2024
|
|
Is it necessary to apply external pressure in the deformation direction?
|
|
2
|
15
|
December 2, 2024
|
|
Lipid membrane energy minimization error
|
|
0
|
14
|
December 1, 2024
|
|
What are the potential risks of having a too high pulling rate in Gromacs umbrella sampling?
|
|
7
|
43
|
November 26, 2024
|
|
How to write flat-bottomed position restraints to prevent water layer from moving in Z direction?
|
|
10
|
56
|
November 23, 2024
|
|
Applying constraints to different molecules in a same system
|
|
0
|
39
|
November 19, 2024
|