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IMP Reference Guide  develop.182d9373c4,2021/04/12
The Integrative Modeling Platform
em Directory Reference
+ Directory dependency graph for em:

Files

file  BayesEM3D.h [code]
 Compute a Bayesian formalism score and its derivatives to assess degree of match between a tested model and a density object.
 
file  CoarseCC.h [code]
 Perform coarse fitting between two density objects.
 
file  CoarseCCatIntervals.h [code]
 Cross correlation coefficient calculator.
 
file  CoarseConvolution.h [code]
 Convolutes two grids.
 
file  converters.h [code]
 Converters of density values.
 
file  def.h [code]
 Definitions for EMBED.
 
file  density_map_volumetrics.h [code]
 Classes and functions to handle volumetric properties in Density maps.
 
file  density_utilities.h [code]
 density map manipulations
 
file  DensityFillingRestraint.h [code]
 Score how well the particles fill the density.
 
file  DensityHeader.h [code]
 Metadata for a density file.
 
file  DensityMap.h [code]
 Class for handling density maps.
 
file  em_config.h [code]
 
file  em/embedding.h [code]
 Cluster sets of points.
 
file  EMReaderWriter.h [code]
 Classes to read or write density files in EM format.
 
file  envelope_penetration.h [code]
 functions for calculation envelope penetration
 
file  EnvelopeFitRestraint.h [code]
 score envelope fit based on map distance transform
 
file  EnvelopePenetrationRestraint.h [code]
 Score how well a protein is inside its density.
 
file  EnvelopeScore.h [code]
 class for envelope based scoring using MapDistanceTransform
 
file  exp.h [code]
 An approximation of the exponential function.
 
file  FitRestraint.h [code]
 Calculate score based on fit to EM map.
 
file  FitRestraintBayesEM3D.h [code]
 Calculate the Bayesian score and derivative based on fit to an EM density map. This restraint differs from em::FitRestraint because it does not use a cross_correlation_coefficient as score but a Bayesian similarity measure.
 
file  header_converters.h [code]
 Functions to convert between ImageHeader and DensityHeader Copyright 2007-2021 IMP Inventors. All rights reserved.
 
file  ImageHeader.h [code]
 Header for EM images. Compatible with Spider and Xmipp formats Copyright 2007-2021 IMP Inventors. All rights reserved.
 
file  KernelParameters.h [code]
 Calculates and stores Gaussian kernel parameters.
 
file  MapDistanceTransform.h [code]
 class for computing a distance transform of the density map
 
file  MapReaderWriter.h [code]
 An abstract class for reading a map.
 
file  masking.h [code]
 masking tools
 
file  MRCReaderWriter.h [code]
 Classes to read or write MRC files.
 
file  PCAAligner.h [code]
 Fast alignment of points to a density map using principal components.
 
file  PCAFitRestraint.h [code]
 Calculate match between density map PCA and particles PCA.
 
file  rigid_fitting.h [code]
 preforms rigid fitting between a set of particles and a density map
 
file  SampledDensityMap.h [code]
 Sampled density map.
 
file  SpiderHeader.h [code]
 Header for Spider and Xmipp formats.
 
file  SpiderReaderWriter.h [code]
 Management of Spider Headers Electron Microscopy. Compatible with Spider and Xmipp formats Copyright 2007-2021 IMP Inventors. All rights reserved.
 
file  SurfaceShellDensityMap.h [code]
 Represent a molecule as shells of distance from the surface.
 
file  Voxel.h [code]
 voxel decorator.
 
file  XplorReaderWriter.h [code]
 Classes to read or write density files in XPLOR format.