|
Free energy perturbation for part of a molecule
|
|
2
|
512
|
November 17, 2022
|
|
Issue with lambda = 1 during free energy calculations
|
|
5
|
536
|
October 25, 2022
|
|
Atoms collapse while free energy simulation
|
|
0
|
256
|
October 24, 2022
|
|
System blowing up in decoupled ligand (in protein complex) simulation for ABFE calculations
|
|
9
|
925
|
October 11, 2022
|
|
Free energy calc gives "WARNING: Some of these results violate the Second Law of Thermodynamics"
|
|
5
|
1246
|
September 6, 2022
|
|
Standard error on AWH free energy estimate?
|
|
6
|
502
|
June 7, 2022
|
|
Cannot perform free energy calculations due to the solvent (not the solute) possessing CBT bonds?
|
|
1
|
471
|
March 8, 2022
|
|
Recalculate potential energy according to a different topology
|
|
3
|
305
|
February 2, 2022
|
|
Using FEP in implicit solvent
|
|
1
|
478
|
January 26, 2022
|
|
Free energy calculation at lambda=1 vs regular MD give different RDFs
|
|
3
|
592
|
December 11, 2021
|
|
Test FEP output file
|
|
1
|
329
|
December 9, 2021
|
|
Calculate the solvation free energy
|
|
1
|
705
|
November 17, 2021
|
|
Fast pulling ligand method for free energy
|
|
1
|
288
|
November 9, 2021
|
|
Fast pulling ligand
|
|
1
|
279
|
November 9, 2021
|
|
AWH FEP mdp options
|
|
5
|
1243
|
September 3, 2021
|
|
Segmentation fault on NVT, free energy calculation
|
|
4
|
1023
|
August 19, 2021
|
|
gmx_MMPBSA: a new tool aiming to perform end-state free energy calculations with GROMACS files
|
|
0
|
1695
|
June 10, 2021
|
|
Negative information entropy in free energy calculations
|
|
0
|
376
|
June 4, 2021
|
|
Free energy perturbation - mdp parameters
|
|
2
|
1420
|
May 2, 2021
|
|
Dt in free energy perturbation calculations
|
|
2
|
964
|
April 1, 2021
|