Python Module Index

m
 
m
MDAnalysis
    MDAnalysis.analysis.align
    MDAnalysis.analysis.atomicdistances
    MDAnalysis.analysis.base
    MDAnalysis.analysis.bat
    MDAnalysis.analysis.contacts
    MDAnalysis.analysis.data.filenames
    MDAnalysis.analysis.density
    MDAnalysis.analysis.dielectric
    MDAnalysis.analysis.diffusionmap
    MDAnalysis.analysis.dihedrals
    MDAnalysis.analysis.distances
    MDAnalysis.analysis.dssp.dssp
    MDAnalysis.analysis.encore.bootstrap
    MDAnalysis.analysis.encore.clustering.affinityprop
    MDAnalysis.analysis.encore.clustering.cluster
    MDAnalysis.analysis.encore.clustering.ClusterCollection
    MDAnalysis.analysis.encore.clustering.ClusteringMethod
    MDAnalysis.analysis.encore.confdistmatrix
    MDAnalysis.analysis.encore.covariance
    MDAnalysis.analysis.encore.dimensionality_reduction.DimensionalityReductionMethod
    MDAnalysis.analysis.encore.dimensionality_reduction.reduce_dimensionality
    MDAnalysis.analysis.encore.dimensionality_reduction.stochasticproxembed
    MDAnalysis.analysis.encore.similarity
    MDAnalysis.analysis.encore.utils
    MDAnalysis.analysis.gnm
    MDAnalysis.analysis.hbonds.hbond_autocorrel
    MDAnalysis.analysis.helix_analysis
    MDAnalysis.analysis.hole2
    MDAnalysis.analysis.hole2.templates
    MDAnalysis.analysis.hole2.utils
    MDAnalysis.analysis.hydrogenbonds.hbond_analysis
    MDAnalysis.analysis.hydrogenbonds.hbond_autocorrel
    MDAnalysis.analysis.hydrogenbonds.wbridge_analysis
    MDAnalysis.analysis.leaflet
    MDAnalysis.analysis.legacy.x3dna
    MDAnalysis.analysis.lineardensity
    MDAnalysis.analysis.msd
    MDAnalysis.analysis.nucleicacids
    MDAnalysis.analysis.nuclinfo
    MDAnalysis.analysis.pca
    MDAnalysis.analysis.polymer
    MDAnalysis.analysis.psa
    MDAnalysis.analysis.rdf
    MDAnalysis.analysis.rms
    MDAnalysis.analysis.waterdynamics
    MDAnalysis.auxiliary.__init__
    MDAnalysis.auxiliary.base
    MDAnalysis.auxiliary.core
    MDAnalysis.auxiliary.EDR
    MDAnalysis.auxiliary.XVG
    MDAnalysis.converters
    MDAnalysis.converters.base
    MDAnalysis.converters.OpenMM
    MDAnalysis.converters.OpenMMParser
    MDAnalysis.converters.ParmEd
    MDAnalysis.converters.ParmEdParser
    MDAnalysis.converters.RDKit
    MDAnalysis.converters.RDKitParser
    MDAnalysis.coordinates.__init__
    MDAnalysis.coordinates.base
    MDAnalysis.coordinates.chain
    MDAnalysis.coordinates.chemfiles
    MDAnalysis.coordinates.core
    MDAnalysis.coordinates.CRD
    MDAnalysis.coordinates.DCD
    MDAnalysis.coordinates.DLPoly
    MDAnalysis.coordinates.DMS
    MDAnalysis.coordinates.FHIAIMS
    MDAnalysis.coordinates.GMS
    MDAnalysis.coordinates.GRO
    MDAnalysis.coordinates.GSD
    MDAnalysis.coordinates.H5MD
    MDAnalysis.coordinates.INPCRD
    MDAnalysis.coordinates.LAMMPS
    MDAnalysis.coordinates.memory
    MDAnalysis.coordinates.MMTF
    MDAnalysis.coordinates.MOL2
    MDAnalysis.coordinates.NAMDBIN
    MDAnalysis.coordinates.null
    MDAnalysis.coordinates.PDB
    MDAnalysis.coordinates.PDBQT
    MDAnalysis.coordinates.PQR
    MDAnalysis.coordinates.timestep
    MDAnalysis.coordinates.TNG
    MDAnalysis.coordinates.TRC
    MDAnalysis.coordinates.TRJ
    MDAnalysis.coordinates.TRR
    MDAnalysis.coordinates.TRZ
    MDAnalysis.coordinates.TXYZ
    MDAnalysis.coordinates.XDR
    MDAnalysis.coordinates.XTC
    MDAnalysis.coordinates.XYZ
    MDAnalysis.core.__init__
    MDAnalysis.core.accessors
    MDAnalysis.core.groups
    MDAnalysis.core.selection
    MDAnalysis.core.topology
    MDAnalysis.core.topologyattrs
    MDAnalysis.core.topologyobjects
    MDAnalysis.core.universe
    MDAnalysis.exceptions
    MDAnalysis.lib ``lib`` collects independent code for re-use in MDAnalysis
    MDAnalysis.lib.c_distances
    MDAnalysis.lib.c_distances_openmp
    MDAnalysis.lib.correlations
    MDAnalysis.lib.distances
    MDAnalysis.lib.formats.libdcd
    MDAnalysis.lib.formats.libmdaxdr
    MDAnalysis.lib.log
    MDAnalysis.lib.mdamath
    MDAnalysis.lib.NeighborSearch
    MDAnalysis.lib.nsgrid
    MDAnalysis.lib.picklable_file_io
    MDAnalysis.lib.pkdtree
    MDAnalysis.lib.qcprot
    MDAnalysis.lib.transformations
    MDAnalysis.lib.util
    MDAnalysis.selections.base
    MDAnalysis.selections.charmm
    MDAnalysis.selections.gromacs
    MDAnalysis.selections.jmol
    MDAnalysis.selections.pymol
    MDAnalysis.selections.vmd
    MDAnalysis.topology.__init__
    MDAnalysis.topology.base
    MDAnalysis.topology.core
    MDAnalysis.topology.CRDParser
    MDAnalysis.topology.DLPolyParser
    MDAnalysis.topology.DMSParser
    MDAnalysis.topology.ExtendedPDBParser
    MDAnalysis.topology.FHIAIMSParser
    MDAnalysis.topology.GMSParser
    MDAnalysis.topology.GROParser
    MDAnalysis.topology.GSDParser
    MDAnalysis.topology.guessers
    MDAnalysis.topology.HoomdXMLParser
    MDAnalysis.topology.ITPParser
    MDAnalysis.topology.LAMMPSParser
    MDAnalysis.topology.MinimalParser
    MDAnalysis.topology.MMTFParser
    MDAnalysis.topology.MOL2Parser
    MDAnalysis.topology.PDBParser
    MDAnalysis.topology.PDBQTParser
    MDAnalysis.topology.PQRParser
    MDAnalysis.topology.PSFParser
    MDAnalysis.topology.tables
    MDAnalysis.topology.TOPParser
    MDAnalysis.topology.tpr
    MDAnalysis.topology.tpr.obj
    MDAnalysis.topology.tpr.setting
    MDAnalysis.topology.tpr.utils
    MDAnalysis.topology.TPRParser
    MDAnalysis.topology.TXYZParser
    MDAnalysis.topology.XYZParser
    MDAnalysis.transformations
    MDAnalysis.transformations.base
    MDAnalysis.transformations.boxdimensions
    MDAnalysis.transformations.fit
    MDAnalysis.transformations.nojump
    MDAnalysis.transformations.positionaveraging
    MDAnalysis.transformations.rotate
    MDAnalysis.transformations.translate
    MDAnalysis.transformations.wrap
    MDAnalysis.units
    MDAnalysis.version
    MDAnalysis.visualization.streamlines
    MDAnalysis.visualization.streamlines_3D