class DensityUndirected(DensityDirected):
"""
"""
_ui_connectivity_label = "Undirected (weighted/binary) connection matrix:"
_ui_name = "Density Unirected"
_ui_description = bct_description("density_und.m")
_matlab_code = "[kden,N,K] = density_und(A);"
class TransitivityBinaryUnDirected(BaseUndirected):
"""
"""
_ui_group = BCT_GROUP_CLUSTERING
_ui_name = "Transitivity Binary Undirected"
_ui_description = bct_description("transitivity_bu.m")
_matlab_code = "T = transitivity_bu(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
value = self.build_float_value_wrapper(result, 'T', "Transitivity Binary Undirected")
return [value]
class TransitivityWeightedUnDirected(TransitivityBinaryUnDirected):
"""
"""
_ui_connectivity_label = LABEL_CONN_WEIGHTED_UNDIRECTED
_ui_name = "Transitivity Weighted undirected"
_ui_description = bct_description("transitivity_wu.m")
_matlab_code = "T = transitivity_wu(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.scaled_weights()
result = self.execute_matlab(self._matlab_code, **kwargs)
value = self.build_float_value_wrapper(result, 'T', "Transitivity Weighted Undirected")
return [value]
class ClusteringCoefficientBU(BaseUndirected):
"""
"""
_ui_group = BCT_GROUP_CLUSTERING
_ui_name = "Clustering Coefficient BU"
_ui_description = bct_description("clustering_coef_bu.m")
_matlab_code = "C = clustering_coef_bu(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'C', connectivity, "Clustering Coefficient BU")
return [measure]
class ClusteringCoefficientWD(ClusteringCoefficient):
"""
"""
_ui_connectivity_label = LABEL_CONN_WEIGHTED_DIRECTED
_ui_name = "Clustering Coeficient WD"
_ui_description = bct_description("clustering_coef_wd.m")
_matlab_code = "C = clustering_coef_wd(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.scaled_weights()
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'C', connectivity, "Clustering Coefficient WD")
return [measure]
class TransitivityWeightedUnDirected(TransitivityBinaryUnDirected):
"""
"""
_ui_name = "Transitivity Weighted undirected: " + LABEL_CONN_WEIGHTED_UNDIRECTED
_ui_description = bct_description("transitivity_wu.m")
_matlab_code = "T = transitivity_wu(A);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'A': connectivity.scaled_weights()}
result = self.execute_matlab(self._matlab_code, data=data)
value = self.build_float_value_wrapper(result, 'T', "Transitivity Weighted Undirected")
return [value]
class ClusteringCoefficientWD(ClusteringCoefficient):
"""
"""
_ui_name = "Clustering Coeficient WD: " + LABEL_CONN_WEIGHTED_DIRECTED
_ui_description = bct_description("clustering_coef_wd.m")
_matlab_code = "C = clustering_coef_wd(A);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'A': connectivity.scaled_weights()}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index = self.build_connectivity_measure(result, 'C', connectivity, "Clustering Coefficient WD")
return [measure_index]
class CentralityEigenVector(BaseUndirected):
"""
"""
_ui_group = BCT_GROUP_CENTRALITY
_ui_name = "EigenVector Centrality"
_ui_description = bct_description("eigenvector_centrality_und.m")
_matlab_code = "v = eigenvector_centrality_und(CIJ)"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'v', connectivity,
"Eigen vector centrality")
return [measure]
class Strength(Degree):
"""
"""
_ui_connectivity_label = "Directed weighted connection matrix:"
_ui_name = "Strength"
_ui_description = bct_description("strengths_und.m")
_matlab_code = "strength = strengths_und(CIJ);"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'strength', connectivity, "Node strength")
return [measure]
class CentralityEdgeWeighted(CentralityNodeWeighted):
"""
"""
_ui_name = "Edge Betweenness Centrality Weighted"
_ui_description = bct_description("edge_betweenness_wei.m")
_matlab_code = "[EBC,BC] = edge_betweenness_wei(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure1 = self.build_connectivity_measure(
result, 'EBC', connectivity, "Edge Betweenness Centrality Matrix")
measure2 = self.build_connectivity_measure(
result, 'BC', connectivity, "Node Betweenness Centrality Vector")
return [measure1, measure2]
class Strength(Degree):
"""
"""
_ui_name = "Strength: Directed weighted connection matrix"
_ui_description = bct_description("strengths_und.m")
_matlab_code = "strength = strengths_und(CIJ);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'CIJ': connectivity.weights}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index = self.build_connectivity_measure(
result, 'strength', connectivity, "Node strength")
return [measure_index]
class ClusteringCoefficientWU(BaseUndirected):
"""
"""
_ui_group = BCT_GROUP_CLUSTERING
_ui_connectivity_label = LABEL_CONN_WEIGHTED_UNDIRECTED
_ui_name = "Clustering Coeficient WU"
_ui_description = bct_description("clustering_coef_wu.m")
_matlab_code = "C = clustering_coef_wu(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.scaled_weights()
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'C', connectivity, "Clustering Coefficient WU")
return [measure]
class StrengthWeights(Strength):
"""
"""
_ui_name = "Strength and Weight"
_ui_description = bct_description("strengths_und_sign.m")
_matlab_code = "[Spos,Sneg,vpos,vneg] = strengths_und_sign(CIJ);"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure1 = self.build_connectivity_measure(result, 'Spos', connectivity, "Nodal strength of positive weights")
measure2 = self.build_connectivity_measure(result, 'Sneg', connectivity, "Nodal strength of negative weights")
value1 = self.build_float_value_wrapper(result, 'vpos', "Total positive weight")
value2 = self.build_float_value_wrapper(result, 'vneg', "Total negative weight")
return [measure1, measure2, value1, value2]
class ClusteringCoefficientWU(BaseUndirected):
"""
"""
_ui_group = BCT_GROUP_CLUSTERING
_ui_name = "Clustering Coeficient WU: " + LABEL_CONN_WEIGHTED_UNDIRECTED
_ui_description = bct_description("clustering_coef_wu.m")
_matlab_code = "C = clustering_coef_wu(A);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'A': connectivity.scaled_weights()}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index = self.build_connectivity_measure(result, 'C', connectivity, "Clustering Coefficient WU")
return [measure_index]
class Degree(BaseBCT):
"""
"""
_ui_group = BCT_GROUP_DEGREE
_ui_connectivity_label = "Undirected (binary/weighted) connection matrix:"
_ui_name = "Degree"
_ui_description = bct_description("degrees_und.m")
_matlab_code = "deg = degrees_und(CIJ);"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'deg', connectivity,
"Node degree")
return [measure]
class ClusteringCoefficient(BaseBCT):
"""
"""
_ui_group = BCT_GROUP_CLUSTERING
_ui_name = "Clustering Coefficient BD: Binary directed connection matrix"
_ui_description = bct_description("clustering_coef_bd.m")
_matlab_code = "C = clustering_coef_bd(A);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'A': connectivity.weights}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index = self.build_connectivity_measure(result, 'C', connectivity, "Clustering Coefficient BD")
return [measure_index]
class SubgraphCentrality(CentralityNodeBinary):
"""
"""
_ui_connectivity_label = "Adjacency matrix (binary)"
_ui_name = "Subgraph centrality of a network"
_ui_description = bct_description("subgraph_centrality.m")
_matlab_code = "Cs = subgraph_centrality(CIJ);"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.binarized_weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'Cs', connectivity,
"Subgraph Centrality")
return [measure]
class CentralityKCorenessBD(CentralityNodeBinary):
"""
"""
_ui_name = "K-coreness centrality BD"
_ui_description = bct_description("kcoreness_centrality_bd.m")
_matlab_code = "[coreness, kn] = kcoreness_centrality_bd(CIJ);"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.binarized_weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure1 = self.build_connectivity_measure(result, 'coreness',
connectivity,
"Node coreness BD")
measure2 = self.build_connectivity_measure(result, 'kn', connectivity,
"Size of k-core")
return [measure1, measure2]
class TransitivityBinaryUnDirected(BaseUndirected):
"""
"""
_ui_group = BCT_GROUP_CLUSTERING
_ui_name = "Transitivity Binary Undirected"
_ui_description = bct_description("transitivity_bu.m")
_matlab_code = "T = transitivity_bu(A);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'A': connectivity.weights}
result = self.execute_matlab(self._matlab_code, data=data)
value = self.build_float_value_wrapper(result, 'T', "Transitivity Binary Undirected")
return [value]
class StrengthISOS(Strength):
"""
"""
_ui_name = "Instrength and Outstrength"
_ui_description = bct_description("strengths_dir.m")
_matlab_code = "[is,os,strength] = strengths_dir(CIJ);"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure1 = self.build_connectivity_measure(result, 'is', connectivity, "Node instrength")
measure2 = self.build_connectivity_measure(result, 'os', connectivity, "Node outstrength")
measure3 = self.build_connectivity_measure(result, 'strength', connectivity,
"Node strength (instrength + outstrength)")
return [measure1, measure2, measure3]
class Degree(BaseBCT):
"""
"""
_ui_group = BCT_GROUP_DEGREE
_ui_name = "Degree: Undirected (binary/weighted) connection matrix"
_ui_description = bct_description("degrees_und.m")
_matlab_code = "deg = degrees_und(CIJ);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'CIJ': connectivity.weights}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index = self.build_connectivity_measure(
result, 'deg', connectivity, "Node degree")
return [measure_index]
class CentralityEdgeWeighted(CentralityNodeWeighted):
"""
"""
_ui_name = "Edge Betweenness Centrality Weighted"
_ui_description = bct_description("edge_betweenness_wei.m")
_matlab_code = "[EBC,BC] = edge_betweenness_wei(A);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'A': connectivity.weights}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index1 = self.build_connectivity_measure(
result, 'EBC', connectivity, "Edge Betweenness Centrality Matrix")
measure_index2 = self.build_connectivity_measure(
result, 'BC', connectivity, "Node Betweenness Centrality Vector")
return [measure_index1, measure_index2]
class CentralityKCorenessBD(CentralityNodeBinary):
"""
"""
_ui_name = "K-coreness centrality BD"
_ui_description = bct_description("kcoreness_centrality_bd.m")
_matlab_code = "[coreness, kn] = kcoreness_centrality_bd(CIJ);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'CIJ': connectivity.binarized_weights}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index1 = self.build_connectivity_measure(
result, 'coreness', connectivity, "Node coreness BD")
measure_index2 = self.build_connectivity_measure(
result, 'kn', connectivity, "Size of k-core")
return [measure_index1, measure_index2]
class CentralityNodeWeighted(BaseBCT):
"""
"""
_ui_group = BCT_GROUP_CENTRALITY
_ui_connectivity_label = "Weighted (directed/undirected) connection matrix:"
_ui_name = "Node Betweenness Centrality Weighted"
_ui_description = bct_description("betweenness_wei.m")
_matlab_code = "C = betweenness_wei(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(
result, 'C', connectivity, "Node Betweenness Centrality Weighted",
"Nodes")
return [measure]
class CentralityNodeBinary(BaseBCT):
"""
"""
_ui_group = BCT_GROUP_CENTRALITY
_ui_connectivity_label = LABEL_CONNECTIVITY_BINARY
_ui_name = "Node Betweenness Centrality Binary"
_ui_description = bct_description("betweenness_bin.m")
_matlab_code = "C = betweenness_bin(A);"
def launch(self, connectivity, **kwargs):
kwargs['A'] = connectivity.binarized_weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(
result, 'C', connectivity, "Node Betweenness Centrality Binary",
"Nodes")
return [measure]
class SubgraphCentrality(CentralityNodeBinary):
"""
"""
_ui_name = "Subgraph centrality of a network: Adjacency matrix (binary)"
_ui_description = bct_description("subgraph_centrality.m")
_matlab_code = "Cs = subgraph_centrality(CIJ);"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'CIJ': connectivity.binarized_weights}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index = self.build_connectivity_measure(
result, 'Cs', connectivity, "Subgraph Centrality")
return [measure_index]
class DegreeIOD(Degree):
"""
"""
_ui_connectivity_label = "Directed (binary/weighted) connection matrix:"
_ui_name = "Indegree and outdegree"
_ui_description = bct_description("degrees_dir.m")
_matlab_code = "[id,od,deg] = degrees_dir(CIJ);"
def launch(self, connectivity, **kwargs):
kwargs['CIJ'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure1 = self.build_connectivity_measure(result, 'id', connectivity, "Node indegree")
measure2 = self.build_connectivity_measure(result, 'od', connectivity, "Node outdegree")
measure3 = self.build_connectivity_measure(result, 'deg', connectivity, "Node degree (indegree + outdegree)")
return [measure1, measure2, measure3]
class CentralityEigenVector(BaseUndirected):
"""
"""
_ui_group = BCT_GROUP_CENTRALITY
_ui_name = "EigenVector Centrality"
_ui_description = bct_description("eigenvector_centrality_und.m")
_matlab_code = "v = eigenvector_centrality_und(CIJ)"
def launch(self, view_model):
connectivity = self.get_connectivity(view_model)
data = {'CIJ': connectivity.weights}
result = self.execute_matlab(self._matlab_code, data=data)
measure_index = self.build_connectivity_measure(
result, 'v', connectivity, "Eigen vector centrality")
return [measure_index]
class ParticipationCoefficient(BaseBCT):
"""
"""
_ui_group = BCT_GROUP_CENTRALITY
_ui_connectivity_label = "Binary/weighted, directed/undirected connection matrix"
_ui_name = "Participation Coefficient"
_ui_description = bct_description("participation_coef.m")
_matlab_code = "[Ci, Q]=modularity_dir(W); P = participation_coef(W, Ci);"
def launch(self, connectivity, **kwargs):
kwargs['W'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure = self.build_connectivity_measure(result, 'P', connectivity,
"Participation Coefficient")
return [measure]
class ParticipationCoefficientSign(ParticipationCoefficient):
"""
"""
_ui_name = "Participation Coefficient Sign"
_ui_description = bct_description("participation_coef_sign.m")
_matlab_code = "[Ci, Q]=modularity_dir(W); [Ppos, Pneg] = participation_coef_sign(W, Ci);"
def launch(self, connectivity, **kwargs):
kwargs['W'] = connectivity.weights
result = self.execute_matlab(self._matlab_code, **kwargs)
measure1 = self.build_connectivity_measure(
result, 'Ppos', connectivity,
"Participation Coefficient from positive weights")
measure2 = self.build_connectivity_measure(
result, 'Pneg', connectivity,
"Participation Coefficient from negative weights")
return [measure1, measure2]