cluster::energy_based_clustering Namespace Reference

Functions
BooleanOptionKey const	energy_based_clustering ("cluster:energy_based_clustering")
BooleanOptionKey const	prerelax ("cluster:energy_based_clustering:prerelax")
IntegerOptionKey const	relax_rounds ("cluster:energy_based_clustering:relax_rounds")
StringOptionKey const	cluster_by ("cluster:energy_based_clustering:cluster_by")
BooleanOptionKey const	use_CB ("cluster:energy_based_clustering:use_CB")
RealOptionKey const	cluster_radius ("cluster:energy_based_clustering:cluster_radius")
IntegerVectorOptionKey const	residues_to_ignore ("cluster:energy_based_clustering:residues_to_ignore")
IntegerVectorOptionKey const	chains_to_ignore ("cluster:energy_based_clustering:chains_to_ignore")
IntegerOptionKey const	limit_structures_per_cluster ("cluster:energy_based_clustering:limit_structures_per_cluster")
IntegerOptionKey const	limit_clusters ("cluster:energy_based_clustering:limit_clusters")
BooleanOptionKey const	cyclic ("cluster:energy_based_clustering:cyclic")
IntegerOptionKey const	cyclic_symmetry ("cluster:energy_based_clustering:cyclic_symmetry")
BooleanOptionKey const	cyclic_symmetry_mirroring ("cluster:energy_based_clustering:cyclic_symmetry_mirroring")
RealOptionKey const	cyclic_symmetry_threshold ("cluster:energy_based_clustering:cyclic_symmetry_threshold")
BooleanOptionKey const	cluster_cyclic_permutations ("cluster:energy_based_clustering:cluster_cyclic_permutations")
IntegerOptionKey const	cyclic_permutation_offset ("cluster:energy_based_clustering:cyclic_permutation_offset")
BooleanOptionKey const	perform_ABOXYZ_bin_analysis ("cluster:energy_based_clustering:perform_ABOXYZ_bin_analysis")
BooleanOptionKey const	mutate_to_ala ("cluster:energy_based_clustering:mutate_to_ala")
IntegerVectorOptionKey const	disulfide_positions ("cluster:energy_based_clustering:disulfide_positions")
BooleanOptionKey const	homooligomer_swap ("cluster:energy_based_clustering:homooligomer_swap")
BooleanOptionKey const	silent_output ("cluster:energy_based_clustering:silent_output")
FileVectorOptionKey const	cst_file ("cluster:energy_based_clustering:cst_file")
StringVectorOptionKey const	extra_rms_atoms ("cluster:energy_based_clustering:extra_rms_atoms")
BooleanOptionKey const	rebuild_all_in_dihedral_mode ("cluster:energy_based_clustering:rebuild_all_in_dihedral_mode")
FileOptionKey const	alternative_score_file ("cluster:energy_based_clustering:alternative_score_file")

Function Documentation

alternative_score_file()

FileOptionKey const cluster::energy_based_clustering::alternative_score_file

(

"cluster:energy_based_clustering:alternative_score_file"

)

References energy_based_clustering().

chains_to_ignore()

IntegerVectorOptionKey const cluster::energy_based_clustering::chains_to_ignore

(

"cluster:energy_based_clustering:chains_to_ignore"

)

References energy_based_clustering().

cluster_by()

StringOptionKey const cluster::energy_based_clustering::cluster_by

(

"cluster:energy_based_clustering:cluster_by"

)

References energy_based_clustering().

cluster_cyclic_permutations()

BooleanOptionKey const cluster::energy_based_clustering::cluster_cyclic_permutations

(

"cluster:energy_based_clustering:cluster_cyclic_permutations"

)

References energy_based_clustering().

cluster_radius()

RealOptionKey const cluster::energy_based_clustering::cluster_radius

(

"cluster:energy_based_clustering:cluster_radius"

)

References energy_based_clustering().

cst_file()

FileVectorOptionKey const cluster::energy_based_clustering::cst_file

(

"cluster:energy_based_clustering:cst_file"

)

References energy_based_clustering().

cyclic()

BooleanOptionKey const cluster::energy_based_clustering::cyclic

(

"cluster:energy_based_clustering:cyclic"

)

References energy_based_clustering().

cyclic_permutation_offset()

IntegerOptionKey const cluster::energy_based_clustering::cyclic_permutation_offset

(

"cluster:energy_based_clustering:cyclic_permutation_offset"

)

References energy_based_clustering().

cyclic_symmetry()

IntegerOptionKey const cluster::energy_based_clustering::cyclic_symmetry

(

"cluster:energy_based_clustering:cyclic_symmetry"

)

References energy_based_clustering().

cyclic_symmetry_mirroring()

BooleanOptionKey const cluster::energy_based_clustering::cyclic_symmetry_mirroring

(

"cluster:energy_based_clustering:cyclic_symmetry_mirroring"

)

References energy_based_clustering().

cyclic_symmetry_threshold()

RealOptionKey const cluster::energy_based_clustering::cyclic_symmetry_threshold

(

"cluster:energy_based_clustering:cyclic_symmetry_threshold"

)

References energy_based_clustering().

disulfide_positions()

IntegerVectorOptionKey const cluster::energy_based_clustering::disulfide_positions

(

"cluster:energy_based_clustering:disulfide_positions"

)

References energy_based_clustering().

energy_based_clustering()

BooleanOptionKey const cluster::energy_based_clustering::energy_based_clustering

(

"cluster:energy_based_clustering"

)

Referenced by alternative_score_file(), chains_to_ignore(), cluster_by(), cluster_cyclic_permutations(), cluster_radius(), cst_file(), cyclic(), cyclic_permutation_offset(), cyclic_symmetry(), cyclic_symmetry_mirroring(), cyclic_symmetry_threshold(), disulfide_positions(), extra_rms_atoms(), homooligomer_swap(), limit_clusters(), limit_structures_per_cluster(), mutate_to_ala(), perform_ABOXYZ_bin_analysis(), prerelax(), rebuild_all_in_dihedral_mode(), relax_rounds(), residues_to_ignore(), silent_output(), and use_CB().

extra_rms_atoms()

StringVectorOptionKey const cluster::energy_based_clustering::extra_rms_atoms

(

"cluster:energy_based_clustering:extra_rms_atoms"

)

References energy_based_clustering().

homooligomer_swap()

BooleanOptionKey const cluster::energy_based_clustering::homooligomer_swap

(

"cluster:energy_based_clustering:homooligomer_swap"

)

References energy_based_clustering().

limit_clusters()

IntegerOptionKey const cluster::energy_based_clustering::limit_clusters

(

"cluster:energy_based_clustering:limit_clusters"

)

References energy_based_clustering().

limit_structures_per_cluster()

IntegerOptionKey const cluster::energy_based_clustering::limit_structures_per_cluster

(

"cluster:energy_based_clustering:limit_structures_per_cluster"

)

References energy_based_clustering().

mutate_to_ala()

BooleanOptionKey const cluster::energy_based_clustering::mutate_to_ala

(

"cluster:energy_based_clustering:mutate_to_ala"

)

References energy_based_clustering().

perform_ABOXYZ_bin_analysis()

BooleanOptionKey const cluster::energy_based_clustering::perform_ABOXYZ_bin_analysis

(

"cluster:energy_based_clustering:perform_ABOXYZ_bin_analysis"

)

References energy_based_clustering().

prerelax()

BooleanOptionKey const cluster::energy_based_clustering::prerelax

(

"cluster:energy_based_clustering:prerelax"

)

References energy_based_clustering().

rebuild_all_in_dihedral_mode()

BooleanOptionKey const cluster::energy_based_clustering::rebuild_all_in_dihedral_mode

(

"cluster:energy_based_clustering:rebuild_all_in_dihedral_mode"

)

References energy_based_clustering().

relax_rounds()

IntegerOptionKey const cluster::energy_based_clustering::relax_rounds

(

"cluster:energy_based_clustering:relax_rounds"

)

References energy_based_clustering().

residues_to_ignore()

IntegerVectorOptionKey const cluster::energy_based_clustering::residues_to_ignore

(

"cluster:energy_based_clustering:residues_to_ignore"

)

References energy_based_clustering().

silent_output()

BooleanOptionKey const cluster::energy_based_clustering::silent_output

(

"cluster:energy_based_clustering:silent_output"

)

References energy_based_clustering().

use_CB()

BooleanOptionKey const cluster::energy_based_clustering::use_CB

(

"cluster:energy_based_clustering:use_CB"

)

References energy_based_clustering().