|
TI - Free Energy - couple-intramol=no
|
|
10
|
175
|
December 7, 2022
|
|
Free energy perturbation for part of a molecule
|
|
2
|
33
|
November 17, 2022
|
|
Issue with lambda = 1 during free energy calculations
|
|
5
|
62
|
October 25, 2022
|
|
Atoms collapse while free energy simulation
|
|
0
|
29
|
October 24, 2022
|
|
System blowing up in decoupled ligand (in protein complex) simulation for ABFE calculations
|
|
9
|
108
|
October 11, 2022
|
|
Free energy calc gives "WARNING: Some of these results violate the Second Law of Thermodynamics"
|
|
5
|
397
|
September 6, 2022
|
|
Standard error on AWH free energy estimate?
|
|
6
|
134
|
June 7, 2022
|
|
Non equilibrium alchemical transformations - Creation - couple-intramol=no
|
|
3
|
857
|
March 14, 2022
|
|
Cannot perform free energy calculations due to the solvent (not the solute) possessing CBT bonds?
|
|
1
|
136
|
March 8, 2022
|
|
Free energy landscape calculation using gmx sham module
|
|
1
|
681
|
February 10, 2022
|
|
Recalculate potential energy according to a different topology
|
|
3
|
108
|
February 2, 2022
|
|
Using FEP in implicit solvent
|
|
1
|
200
|
January 26, 2022
|
|
Scaling position restraints with restraint-lambdas
|
|
5
|
211
|
January 17, 2022
|
|
How to Calculate the linear interaction energy
|
|
16
|
655
|
January 7, 2022
|
|
Free energy calculation at lambda=1 vs regular MD give different RDFs
|
|
3
|
171
|
December 11, 2021
|
|
Test FEP output file
|
|
1
|
150
|
December 9, 2021
|
|
Calculate the solvation free energy
|
|
1
|
168
|
November 17, 2021
|
|
Fast pulling ligand method for free energy
|
|
1
|
127
|
November 9, 2021
|
|
Fast pulling ligand
|
|
1
|
104
|
November 9, 2021
|
|
Simulations with free energy calculations on GPU is several time slower than normal simulations
|
|
2
|
190
|
November 4, 2021
|
|
AWH FEP mdp options
|
|
5
|
618
|
September 3, 2021
|
|
Segmentation fault on NVT, free energy calculation
|
|
4
|
398
|
August 19, 2021
|
|
gmx_MMPBSA: a new tool aiming to perform end-state free energy calculations with GROMACS files
|
|
0
|
860
|
June 10, 2021
|
|
Negative information entropy in free energy calculations
|
|
0
|
201
|
June 4, 2021
|
|
Free energy perturbation - mdp parameters
|
|
2
|
583
|
May 2, 2021
|
|
Dt in free energy perturbation calculations
|
|
2
|
364
|
April 1, 2021
|