- variables (vermouth.forcefield.ForceField attribute)
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vermouth
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vermouth.citation_parser
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vermouth.dssp
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vermouth.dssp.dssp
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vermouth.edge_tuning
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vermouth.ffinput
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vermouth.file_writer
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vermouth.forcefield
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vermouth.geometry
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vermouth.gmx
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vermouth.gmx.gro
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vermouth.gmx.itp
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vermouth.gmx.itp_read
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vermouth.gmx.rtp
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vermouth.gmx.topology
-
vermouth.graph_utils
-
vermouth.ismags
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vermouth.log_helpers
-
vermouth.map_input
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vermouth.map_parser
-
vermouth.molecule
-
vermouth.parser_utils
-
vermouth.pdb
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vermouth.pdb.pdb
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vermouth.processors
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vermouth.processors.add_molecule_edges
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vermouth.processors.annotate_mut_mod
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vermouth.processors.apply_posres
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vermouth.processors.apply_rubber_band
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vermouth.processors.attach_mass
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-
vermouth.processors.average_beads
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vermouth.processors.canonicalize_modifications
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vermouth.processors.do_links
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vermouth.processors.do_mapping
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vermouth.processors.gro_reader
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vermouth.processors.locate_charge_dummies
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vermouth.processors.make_bonds
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vermouth.processors.merge_all_molecules
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vermouth.processors.merge_chains
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vermouth.processors.name_moltype
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vermouth.processors.pdb_reader
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vermouth.processors.processor
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vermouth.processors.quote
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vermouth.processors.rename_modified_residues
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vermouth.processors.repair_graph
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vermouth.processors.set_molecule_meta
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vermouth.processors.sort_molecule_atoms
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vermouth.processors.tune_cystein_bridges
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vermouth.processors.water_bias
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vermouth.rcsu
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vermouth.rcsu.contact_map
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vermouth.rcsu.go_pipeline
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vermouth.rcsu.go_structure_bias
-
vermouth.rcsu.go_utils
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vermouth.rcsu.go_vs_includes
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vermouth.selectors
-
vermouth.system
-
vermouth.truncating_formatter
-
vermouth.utils
- VirtualSiteCreator (class in vermouth.rcsu.go_vs_includes)
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