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Cuby comes with a set of scripts helping to prepare calculations and work with the results. !Submitting cuby job to queue system *[submit] !Geometry format conversion *[geometry2xyz] - Format conversion: to .xyz *[geometry2pdb] - Format conversion: to PDB file !Geometry manipulation *[geometry] - basic operations with geometry *[geometry_pdbtools] - operations specific to PDB files *[geometry_fragmentation] - Script handling multiple tasks useful when preparing fragmented calculation. !Analysis of the results *[et_paths] - search for the most probable electron transfer paths in trajectory from MD <!-- *[measure] !Visualization *[visualize_intmatrix] -->
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