IMP Reference Guide
2.20.2
The Integrative Modeling Platform
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Files | |
file | AmbiguousNOERestraint.h [code] |
A lognormal restraint that uses the ISPA model to model NOE-derived distance fit. | |
file | AmbiguousRestraint.h [code] |
An implementation of the d-norm to make an ambiguous restraint. | |
file | AtomicCrossLinkMSRestraint.h [code] |
A pmf based likelihood function with prior knowledge on the false positive rate. | |
file | bivariate_functions.h [code] |
Classes for general functions. | |
file | CrossLinkData.h [code] |
Normal distribution of Function. | |
file | CrossLinkMSRestraint.h [code] |
A pmf based likelihood function with prior knowledge on the false positive rate. | |
file | CysteineCrossLinkData.h [code] |
Normal distribution of Function. | |
file | CysteineCrossLinkRestraint.h [code] |
A sigmoid shaped restraint between residues with discrete classifier and ambiguous assignment. To be used with cross-linking mass-spectrometry data. | |
file | isd/distribution.h [code] |
Base class for probability distributions. | |
file | em_utilities.h [code] |
Common scoring functions. | |
file | FNormal.h [code] |
Normal distribution of Function. | |
file | FretData.h [code] |
Auxiliary class useful for FRET_R restraint. | |
file | FretRestraint.h [code] |
FRET_R restraint to use in vivo FRET data. | |
file | FStudentT.h [code] |
Joint Student's t-distribution of Function. | |
file | GammaPrior.h [code] |
A restraint on a scale parameter. | |
file | GaussianAnchorEMRestraint.h [code] |
Restraint between two sets of anchor points "model" and "EM density". | |
file | isd/GaussianEMRestraint.h [code] |
Restrain two sets of Gaussians (model and GMM derived from EM map) | |
file | GaussianProcessInterpolation.h [code] |
Normal distribution of Function. | |
file | GaussianProcessInterpolationRestraint.h [code] |
Restraint and ScoreState for GaussianProcessInterpolation. | |
file | GaussianRestraint.h [code] |
A lognormal restraint that uses the ISPA model to model NOE-derived distance fit. | |
file | HybridMonteCarlo.h [code] |
A hybrid monte carlo implementation. | |
file | isd_config.h [code] |
file | isd/ISDRestraint.h [code] |
file | JeffreysRestraint.h [code] |
A restraint on a scale parameter. | |
file | LognormalAmbiguousRestraint.h [code] |
A sigmoid shaped restraint between residues with discrete classifier and ambiguous assignment. To be used with cross-linking mass-spectrometry data. | |
file | LognormalRestraint.h [code] |
A lognormal restraint that uses the ISPA model to model NOE-derived distance fit. | |
file | LogWrapper.h [code] |
Calculate the -Log of a list of restraints. | |
file | MarginalHBondRestraint.h [code] |
A lognormal restraint that uses the ISPA model to model HBond-derived distance fit. | |
file | MarginalNOERestraint.h [code] |
A lognormal restraint that uses the ISPA model to model NOE-derived distance fit. | |
file | isd/MolecularDynamics.h [code] |
Simple molecular dynamics optimizer. | |
file | MolecularDynamicsMover.h [code] |
A modifier which perturbs XYZs or Nuisances with a constant energy MD simulation. | |
file | MultivariateFNormalSufficient.h [code] |
Normal distribution of Function. | |
file | NOERestraint.h [code] |
A lognormal restraint that uses the ISPA model to model NOE-derived distance fit. | |
file | NormalSigmaPCRestraint.h [code] |
A Penalized Complexity prior on sigma of a normal distribution. | |
file | Nuisance.h [code] |
A decorator for nuisance parameters particles. | |
file | PenalizedComplexityPrior.h [code] |
Penalized complexity prior. | |
file | RepulsiveDistancePairScore.h [code] |
A simple quadric repulsive term between two atoms. Restraint is zero when the distance equals the sum of the radii plus the shift. | |
file | ResidueProteinProximityRestraint.h [code] |
Restrain a selection of particles (eg. a residue or segment) to be within a certain distance of a second selection of particles (eg. a protein). Use to model data from mutagenesis experiments that disrupt protein-protein interactions. | |
file | Scale.h [code] |
A decorator for scale parameters particles. | |
file | StudentTRestraint.h [code] |
A Student-t distribution restraint. | |
file | Switching.h [code] |
A decorator for switching parameters particles. | |
file | TALOSRestraint.h [code] |
TALOS dihedral restraint between four particles. | |
file | UniformPrior.h [code] |
A restraint on a scale parameter. | |
file | univariate_functions.h [code] |
Classes for general functions. | |
file | vonMises.h [code] |
Normal distribution of Function. | |
file | vonMisesKappaConjugateRestraint.h [code] |
Conjugate prior for \(\kappa\) in the von Mises distribution. | |
file | vonMisesKappaJeffreysRestraint.h [code] |
Jeffreys prior for \(\kappa\) in the von Mises distribution. | |
file | vonMisesSufficient.h [code] |
Normal distribution of Function. | |
file | Weight.h [code] |
Add weights constrained to the unit simplex to a particle. | |
file | WeightMover.h [code] |
A mover that perturbs a Weight particle. | |
file | WeightRestraint.h [code] |
Put description here. | |