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How to extract middle cluster structure form gmx_cluster output file cluster.pdb
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0
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34
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April 29, 2026
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PBC/trajectory reconstruction problem for discontinuous multi-chain RNA fragment
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0
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19
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April 28, 2026
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Fatal error: Internal error in LAPACK diagonalization
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6
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64
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April 28, 2026
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Installing gromac in anaconda/spyder environment
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0
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22
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April 28, 2026
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One system not plateauing in NPT before SMD comparison across multiple complexes
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0
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23
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April 28, 2026
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Question Amber19SB and generation of modified residues
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0
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35
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April 26, 2026
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GROMACS SMD for TCR–pMHC: should TCR be pull group 1 or 2
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0
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33
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April 25, 2026
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Energy calculations during mdrun with multiple groups
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2
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35
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April 23, 2026
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Covalent bound PLP to SPT (membrane bound)
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0
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28
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April 22, 2026
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Unexpected lateral forces in idealised slab system of LJ particles
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1
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35
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April 22, 2026
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Using AWH for bilayer permeability
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18
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1357
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April 22, 2026
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How to use CHARMM-GUI LBS Finder & Refiner output for GROMACS sim to hypothesize binding site
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0
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23
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April 21, 2026
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Peptide-protein MD sumulation
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0
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26
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April 21, 2026
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Scaling factor for surface tension in Reduced Units
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2
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35
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April 19, 2026
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'Two replicas have identical temperatures' error during REST2 simulation in GROMACS 2025"
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1
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32
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April 15, 2026
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Changes of default `nstpcouple` and `nsttcouple` from version 2022 to 2023
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35
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2432
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April 14, 2026
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Extreme performance loss with version 2026.1 on APUs
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10
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141
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April 13, 2026
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Would x3DNA/DSSR functionality built into Gromacs be useful?
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3
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66
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April 10, 2026
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CHARMMGUI Webserver Topologies to GROMACS
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3
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83
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April 9, 2026
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Martini AWH: Drug–polymer complex does not permeate membrane with position restraints; complex break
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0
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29
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April 9, 2026
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Help me in Viscosity Calculation using Growmacs
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1
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42
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April 8, 2026
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C-rescale vs Parrinello–Rahman in final NPT equilibration before protein–protein SMD (TCR–pMHC, ~1M
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1
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115
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April 8, 2026
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Simulating a protein or DNA with multiple ligands
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2
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56
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April 7, 2026
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Segmentation fault - pairdist
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1
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49
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April 7, 2026
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Obtaining parameters for ligands in a nanoparticle assembly
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0
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39
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April 5, 2026
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Virtual site creation
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0
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26
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April 5, 2026
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Modifying a Slurm .sh script towards a running a Checkpoint File Inquiry?
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0
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112
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April 4, 2026
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Install Gromacs using conda
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1
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154
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April 4, 2026
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GROMACS Command for Minimization, Equilibration, Production Runs from CHARMM README
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0
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45
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April 4, 2026
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Variation in different gromacs version
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2
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67
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April 2, 2026
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