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Steered MD doesn't produce expected force graph
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1
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51
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April 8, 2024
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How can I calculate the persistence length of a polymer using the gmx polystat command?
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2
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49
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April 8, 2024
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What pressure value after NPT is acceptable for Charmm36 force field?
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3
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64
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April 8, 2024
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The atom charges for lipid differ between CHARMM-GUI and the CHARMM GROMACS port
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2
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58
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April 7, 2024
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Solvent deformation during NVT equilibration
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1
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58
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April 7, 2024
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Error while "make check" in installing GPU version of GROMACS
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8
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924
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April 6, 2024
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While adding the force field parameter in dna aptamer
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3
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101
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April 6, 2024
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Alternative to CGenFF for generating large ligand topology
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4
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717
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April 6, 2024
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Running genion non-interactively. No dialogues
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4
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83
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April 5, 2024
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How to insert systematically an specific number of molecules of solvent in periodic box with solute?
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8
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1096
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April 5, 2024
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Fatal Error during nvt run
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6
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199
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April 5, 2024
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Fatal Error: multiple T-coupling groups
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8
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2748
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April 5, 2024
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Invalid T coupling input: 3 groups, 2 ref-t values and 2 tau-t values
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5
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995
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April 5, 2024
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RDF suddenly drops from 1
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1
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48
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April 5, 2024
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GROMACS is adding in nonphysical/incorrect hydrogen atom coordinates during pdb2gmx
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0
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45
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April 5, 2024
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How to compute properties in a spherical region
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0
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36
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April 4, 2024
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Inconsistency of gmx hbond analysis
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0
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52
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April 4, 2024
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Pressure equilibration on Mac not working
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3
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207
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March 6, 2024
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After installation
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0
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38
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April 4, 2024
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Whether periodic molecules = yes leads to visualisation of a polymer structure in simulations
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8
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86
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April 4, 2024
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C-terminus protonation using PDB2GMX
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2
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72
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April 4, 2024
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Protein move out of box and RMSD grpah
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6
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94
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April 4, 2024
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Atom -C not found in residue PTR 577, rtp entry PTR while adding hydrogens
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0
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31
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April 4, 2024
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Protein come out of the box but trjconv command didn't fix the problem
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9
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2681
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April 3, 2024
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Average values of RMSD, Rg, SASA and h bonds: is it reasonable to calculate?
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2
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61
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April 3, 2024
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Modify gmx analysis code (gmx saxs) for OpenMP acceleration
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0
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37
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April 3, 2024
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Peptide moving out of the box during peptide-protein MD
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2
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56
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April 3, 2024
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Forecfield incorporation in gromacs
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10
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128
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April 3, 2024
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Make index file for each residue
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4
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196
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April 3, 2024
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Optimizing simulation speed for 2 million atoms
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3
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65
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April 2, 2024
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