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Issue with correcting PBC for DNA Separation in GROMACS
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7
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23
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January 15, 2025
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Handling of PBCs with multiple peptides
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2
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12
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January 7, 2025
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Drift of the system in the periodic box during simulations
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2
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27
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December 17, 2024
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System getting out of box upon simulation
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2
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53
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October 29, 2024
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Jumping residue after PBC removal
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13
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224
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August 26, 2024
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Fix two separate DNA strands after simulation using -pbc cluster
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0
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9
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July 22, 2024
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Manual Error Regarding Rhombic Dodecahedral Cell?
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1
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104
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April 30, 2024
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Trajectory slicing changes 3D coordinates
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1
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155
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March 7, 2024
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Is PBC correction necessary for some particular type of analysis?
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2
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944
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May 30, 2023
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Unification of box shapes in molecular simulations
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2
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465
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March 16, 2023
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PBC correction doesn't remove all PBCs
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0
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568
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November 2, 2022
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Remove PBC effects on membrane+protein+ligand
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4
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561
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October 20, 2022
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Making densities (multimers/aggregates/objects) whole over PBC
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0
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666
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February 9, 2022
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Why does molecules in MD trajectory go out of the pbc box in VMD / pymol?
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1
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889
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January 21, 2022
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Pbc correction
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1
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439
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November 12, 2021
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Remove PBC
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1
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650
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September 27, 2021
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Starting simulation from another trajectory using -t grompp option - How are PBC treated?
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3
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711
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March 30, 2021
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