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Indexing particular residues in GROMACS
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0
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9
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September 19, 2025
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Energy minimizing multiple frames of an MD trajectory
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0
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15
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September 12, 2025
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RMSD graph after protein protein md simulation
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4
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54
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September 8, 2025
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Implementation of the gmx potential '-symm' option
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2
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8
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September 5, 2025
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Issue with re-wrapping and re-centering peptide-protein system
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2
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472
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September 4, 2025
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PBC correction for drug–lipid bilayer system (GROMACS 2024.5)
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0
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22
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August 19, 2025
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Gromacs output files to .nmd file
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0
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15
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August 15, 2025
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Error while analyzing .tpr file generated using gromacs 2025.2
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6
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36
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August 11, 2025
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Centering a micelle in a gro file, but it's cut by box boundary
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1
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20
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July 28, 2025
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MMPBSA for custom atom types
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0
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29
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July 20, 2025
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Error in topology conversion from CGenFF
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0
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26
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July 1, 2025
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How to create restrained file for sol
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0
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20
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July 15, 2025
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Number of digits in rdf data
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0
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15
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July 14, 2025
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Hbond calculation
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3
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872
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July 14, 2025
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How to use gmx hbond to analyze hydrogen bond between two chains of a homodimer?
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4
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1090
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July 9, 2025
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gmx_clusterByFeatures - Features-based conformational clustering from MD Simulations
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0
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38
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July 7, 2025
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Gmx make_ndx - index Ca and H instead of N and H
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0
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16
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June 22, 2025
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AWH multiple .xvg files analysis
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1
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20
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June 5, 2025
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Unusual RMSD of ligand-protein
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6
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113
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May 23, 2025
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ERROR 1 [file dd.itp, line 198]: No default Proper Dih. types
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0
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22
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May 19, 2025
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Fatal error: Residue 175 named GLU of a molecule in the input file was mapped to an entry in the top
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0
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12
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May 18, 2025
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Atom C1 not found in building block 1MET while combining tbp and trp
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0
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56
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May 18, 2025
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Entropy calculation output
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3
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810
|
May 16, 2025
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gorder: Comprehensive tool for calculating lipid order parameters from molecular simulations
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0
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35
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May 12, 2025
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Interpretation of Nonzero 14-LJ and 14-Coul Terms for Nonbonded Groups
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7
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43
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May 8, 2025
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listRanges does not have a first element with value 0
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3
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182
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April 12, 2025
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SMD output files and interpretation
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0
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12
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May 2, 2025
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The options about xmax and xmin for gmx densmap
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1
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31
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May 2, 2025
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Rotating protein in trajectory
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6
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58
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May 1, 2025
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Protein-Lipid system, protein keeps flipping or jumping
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2
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60
|
April 25, 2025
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