AlloViz

  • AlloViz
  • Network construction methods
  • Tutorials
  • API reference
  • AlloViz.Protein
    • AlloViz.Protein.analyze
    • AlloViz.Protein.calculate
    • AlloViz.Protein.filter
    • AlloViz.Protein.view
  • AlloViz.Delta
    • AlloViz.Delta.view
  • AlloViz
    • AlloViz.AlloViz
      • AlloViz.AlloViz.Analysis
        • AlloViz.AlloViz.Analysis.nodes_dict
        • AlloViz.AlloViz.Analysis.edges_dict
        • AlloViz.AlloViz.Analysis.add_data
        • AlloViz.AlloViz.Analysis.analyze
        • AlloViz.AlloViz.Analysis.analyze_graph
        • AlloViz.AlloViz.Analysis.single_analysis
        • AlloViz.AlloViz.Analysis.wait_analyze
      • AlloViz.AlloViz.Classes
        • AlloViz.AlloViz.Classes.Delta
        • AlloViz.AlloViz.Classes.Protein
      • AlloViz.AlloViz.Elements
        • AlloViz.AlloViz.Elements.Edges
        • AlloViz.AlloViz.Elements.Element
        • AlloViz.AlloViz.Elements.Nodes
      • AlloViz.AlloViz.Filtering
        • AlloViz.AlloViz.Filtering.All
        • AlloViz.AlloViz.Filtering.GPCR_Interhelix
        • AlloViz.AlloViz.Filtering.GetContacts_edges
        • AlloViz.AlloViz.Filtering.No_Sequence_Neighbors
        • AlloViz.AlloViz.Filtering.Spatially_distant
        • AlloViz.AlloViz.Filtering.Filtering
      • AlloViz.AlloViz.info
        • AlloViz.AlloViz.info.wrappers
        • AlloViz.AlloViz.info.dihedrals_atoms
      • AlloViz.AlloViz.trajutils
        • AlloViz.AlloViz.trajutils.download_GPCRmd_files
        • AlloViz.AlloViz.trajutils.download_SCoV2MD_files
        • AlloViz.AlloViz.trajutils.get_GPCRdb_numbering
        • AlloViz.AlloViz.trajutils.get_bonded_cys
        • AlloViz.AlloViz.trajutils.process_input
        • AlloViz.AlloViz.trajutils.standardize_resnames
      • AlloViz.AlloViz.utils
        • AlloViz.AlloViz.utils.pkgsl
        • AlloViz.AlloViz.utils.metricsl
        • AlloViz.AlloViz.utils.filteringsl
        • AlloViz.AlloViz.utils.pool
        • AlloViz.AlloViz.utils.get_pool
        • AlloViz.AlloViz.utils.make_list
        • AlloViz.AlloViz.utils.pkgname
        • AlloViz.AlloViz.utils.rgetattr
        • AlloViz.AlloViz.utils.rhasattr
        • AlloViz.AlloViz.utils.dummypool
    • AlloViz.Wrappers
      • AlloViz.Wrappers.AlloViz_w
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Backbone_Dihs
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Base
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Chi1
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Chi2
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Chi3
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Chi4
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Dihs
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Phi
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Psi
        • AlloViz.Wrappers.AlloViz_w.AlloViz_Sidechain_Dihs
      • AlloViz.Wrappers.Base
        • AlloViz.Wrappers.Base.lazy_import
        • AlloViz.Wrappers.Base.Base
        • AlloViz.Wrappers.Base.Combined_Dihs
        • AlloViz.Wrappers.Base.Combined_Dihs_Avg
        • AlloViz.Wrappers.Base.Multicore
      • AlloViz.Wrappers.CARDS_w
        • AlloViz.Wrappers.CARDS_w.CARDS
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Backbone_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Chi1
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Chi2
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Chi3
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Chi4
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Phi
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Psi
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_Sidechain_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Backbone_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Chi1
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Chi2
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Chi3
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Chi4
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Phi
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Psi
        • AlloViz.Wrappers.CARDS_w.CARDS_Disorder_mediated_Sidechain_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Backbone_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Chi1
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Chi2
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Chi3
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Chi4
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Phi
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Psi
        • AlloViz.Wrappers.CARDS_w.CARDS_Holistic_Sidechain_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Backbone_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Chi1
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Chi2
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Chi3
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Chi4
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Dihs
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Phi
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Psi
        • AlloViz.Wrappers.CARDS_w.CARDS_MI_Sidechain_Dihs
      • AlloViz.Wrappers.GSAtools
        • AlloViz.Wrappers.GSAtools.GSAtools
      • AlloViz.Wrappers.GetContacts
      • AlloViz.Wrappers.MDEntropy_w
        • AlloViz.Wrappers.MDEntropy_w.MDEntropy_AlphaAngle
        • AlloViz.Wrappers.MDEntropy_w.MDEntropy_Backbone_Dihs
        • AlloViz.Wrappers.MDEntropy_w.MDEntropy_Base
        • AlloViz.Wrappers.MDEntropy_w.MDEntropy_Contacts
        • AlloViz.Wrappers.MDEntropy_w.MDEntropy_Phi
        • AlloViz.Wrappers.MDEntropy_w.MDEntropy_Psi
      • AlloViz.Wrappers.MDTASK
      • AlloViz.Wrappers.PyInteraph2_w
        • AlloViz.Wrappers.PyInteraph2_w.PyInteraph2_Atomic_Contacts_Occurrence
        • AlloViz.Wrappers.PyInteraph2_w.PyInteraph2_Atomic_Contacts_Strength
        • AlloViz.Wrappers.PyInteraph2_w.PyInteraph2_Base
        • AlloViz.Wrappers.PyInteraph2_w.PyInteraph2_Contacts
        • AlloViz.Wrappers.PyInteraph2_w.PyInteraph2_Energy
      • AlloViz.Wrappers.correlationplus_w
        • AlloViz.Wrappers.correlationplus_w.correlationplus_Backbone_Dihs
        • AlloViz.Wrappers.correlationplus_w.correlationplus_CA_LMI
        • AlloViz.Wrappers.correlationplus_w.correlationplus_CA_Pear
        • AlloViz.Wrappers.correlationplus_w.correlationplus_Phi
        • AlloViz.Wrappers.correlationplus_w.correlationplus_Psi
      • AlloViz.Wrappers.dynetan_w
        • AlloViz.Wrappers.dynetan_w.dynetan
      • AlloViz.Wrappers.g_correlation_w
        • AlloViz.Wrappers.g_correlation_w.g_correlation_CA_LMI
        • AlloViz.Wrappers.g_correlation_w.g_correlation_CA_MI
      • AlloViz.Wrappers.pytraj_w
        • AlloViz.Wrappers.pytraj_w.pytraj_CA
        • AlloViz.Wrappers.pytraj_w.pytraj_CB

AlloViz.Wrappers.PyInteraph2_w¶

PyInteraph2 wrapper

It calculates interaction energies and contact frequencies.

Classes

PyInteraph2_Atomic_Contacts_Occurrence(...)

PyInteraph2's atomic contacts occurrence

PyInteraph2_Atomic_Contacts_Strength(protein, d)

PyInteraph2's atomic contacts strength

PyInteraph2_Base(protein, d)

PyInteraph2 base class

PyInteraph2_Contacts(protein, d)

PyInteraph2's side-chain contact frequencies

PyInteraph2_Energy(protein, d)

PyInteraph2's interaction energies

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