BALL  1.4.79
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BALL::PoseClustering Member List

This is the complete list of members for BALL::PoseClustering, including all inherited members.

althausCompute_()BALL::PoseClusteringprotected
applyTransformation2System(Index i, System &target_system)BALL::PoseClustering
atom_bijection_BALL::PoseClusteringprotected
BALL_CREATE(PoseClustering)BALL::PoseClustering
base_conformation_BALL::PoseClusteringprotected
base_system_BALL::PoseClusteringprotected
clear_()BALL::PoseClusteringprotected
clinkInner_(int current_level)BALL::PoseClusteringprotected
cluster_representatives_BALL::PoseClusteringprotected
cluster_scores_BALL::PoseClusteringprotected
cluster_tree_BALL::PoseClusteringprotected
clusters_BALL::PoseClusteringprotected
ClusterTree typedefBALL::PoseClustering
ClusterTreeNode typedefBALL::PoseClustering
collectClusterBelow_(ClusterTreeNode const &v)BALL::PoseClusteringprotected
com_BALL::PoseClusteringprotected
compute()BALL::PoseClustering
computeCenterOfMasses_()BALL::PoseClusteringprotected
computeCompleteLinkageRMSD(Index i, Options options, bool initialize=true)BALL::PoseClustering
computeCovarianceMatrix(System const &system, Index rmsd_level_of_detail=C_ALPHA)BALL::PoseClusteringstatic
computeWardDistance_(ClusterTreeNode i, ClusterTreeNode j, Index rmsd_type)BALL::PoseClusteringprotected
convertSnaphots2Transformations()BALL::PoseClustering
convertTransformations2Snaphots()BALL::PoseClustering
covariance_matrix_BALL::PoseClusteringprotected
current_set_BALL::PoseClusteringprotected
delete_conformation_set_BALL::PoseClusteringprotected
deserializeWardClusterTree(std::istream &in, bool binary=false)BALL::PoseClustering
exportWardClusterTreeToGraphViz(std::ostream &out)BALL::PoseClustering
extractClustersForThreshold(float threshold, Size min_size=0)BALL::PoseClustering
extractNBestClusters(Size n)BALL::PoseClustering
filterClusters(Size min_size=1)BALL::PoseClustering
findClusterRepresentative(Index i)BALL::PoseClustering
getAtomBijection()BALL::PoseClusteringinline
getAtomBijection() const BALL::PoseClusteringinline
getCentersOfMass()BALL::PoseClusteringinline
getCentersOfMass() const BALL::PoseClusteringinline
getCluster(Index i) const BALL::PoseClustering
getCluster(Index i)BALL::PoseClustering
getClusterConformationSet(Index i)BALL::PoseClustering
getClusterRepresentative(Index i)BALL::PoseClustering
getClusterRMSD_(Index i, Index j, Index rmsd_type)BALL::PoseClusteringprotected
getClusterScore(Index i) const BALL::PoseClustering
getClusterSize(Index i) const BALL::PoseClustering
getConformationSet() const BALL::PoseClusteringinline
getConformationSet()BALL::PoseClusteringinline
getNumberOfClusters() const BALL::PoseClusteringinline
getNumberOfPoses() const BALL::PoseClusteringinline
getPose(Index i) const BALL::PoseClustering
getPoses() const BALL::PoseClusteringinline
getReducedConformationSet()BALL::PoseClustering
getRigidRMSD(Eigen::Vector3f const &t_ab, Eigen::Matrix3f const &M_ab, Eigen::Matrix3f const &covariance_matrix)BALL::PoseClusteringstatic
getRigidTransformations() const BALL::PoseClusteringinline
getRMSD_(Index i, Index j, Index rmsd_type)BALL::PoseClusteringprotected
getScore(const System sys_a, const System sys_b, Options options) const BALL::PoseClustering
getSquaredRigidRMSD(Eigen::Vector3f const &t_ab, Eigen::Matrix3f const &M_ab, Eigen::Matrix3f const &covariance_matrix)BALL::PoseClusteringstatic
getSystem() const BALL::PoseClustering
getSystem()BALL::PoseClustering
has_rigid_transformations_BALL::PoseClusteringprotected
initWardDistance_(Index rmsd_type)BALL::PoseClusteringprotected
isExcludedByLevelOfDetail_(Atom const *atom, Index rmsd_level_of_detail)BALL::PoseClusteringprotectedstatic
lambda_BALL::PoseClusteringprotected
linearSpaceCompute_()BALL::PoseClusteringprotected
mu_BALL::PoseClusteringprotected
nearestNeighborChainCompute_()BALL::PoseClusteringprotected
number_of_selected_atoms_BALL::PoseClusteringprotected
optionsBALL::PoseClustering
pairwise_scores_BALL::PoseClusteringprotected
pi_BALL::PoseClusteringprotected
PoseClustering()BALL::PoseClustering
PoseClustering(ConformationSet *poses, float rmsd)BALL::PoseClustering
PoseClustering(System const &base_system, String transformation_file_name)BALL::PoseClustering
poses_BALL::PoseClusteringprotected
precomputeAtomBijection_()BALL::PoseClusteringprotected
printCluster_(Index i, std::ostream &out=std::cout) const BALL::PoseClusteringprotected
printClusters(std::ostream &out=std::cout) const BALL::PoseClustering
printClusterScores(std::ostream &out=std::cout)BALL::PoseClustering
printVariables_(int a, int b, double c, int d, double e, int current_level)BALL::PoseClusteringprotected
readTransformationsFromFile_(String filename)BALL::PoseClusteringprotected
refineClustering(Options const &refined_options)BALL::PoseClustering
rmsd_level_of_detail_BALL::PoseClusteringprotected
serializeWardClusterTree(std::ostream &out, bool binary=false)BALL::PoseClustering
setBaseSystemAndPoses(System const &base_system, std::vector< PosePointer > const &poses)BALL::PoseClustering
setBaseSystemAndTransformations(System const &base_system, String transformation_file_name)BALL::PoseClustering
setConformationSet(ConformationSet *new_set, bool precompute_atombijection=false)BALL::PoseClustering
setDefaultOptions()BALL::PoseClustering
slinkInner_(int current_level)BALL::PoseClusteringprotected
storeSnapShotReferences_()BALL::PoseClusteringprotected
system_i_BALL::PoseClusteringprotected
system_j_BALL::PoseClusteringprotected
transformations_BALL::PoseClusteringprotected
trivialCompute_()BALL::PoseClusteringprotected
updateWardDistance_(ClusterTreeNode parent, ClusterTreeNode i, ClusterTreeNode j, Index rmsd_type)BALL::PoseClusteringprotected
~PoseClustering()BALL::PoseClusteringvirtual
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