gemben
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Dependencies
Installation
Testing
User Documentation
Introduction
Challenges
Why this Benchmark Package?
Organization
Background
GEM-Benchmark
Dataset
Benchmark Dataset
API Documentation
Baseline Graph Embedding Algorithms
gemben utility function
Evaluation Module
Experiment Module
Tutorial - Examples
General examples
Addtional Information
Authors
Citing gemben
License
gemben
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Index
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B
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C
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D
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E
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G
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H
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I
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J
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L
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N
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O
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P
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R
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S
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T
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W
A
AdamicAdar (class in gemben.embedding.aa)
addChaos() (in module gemben.utils.graph_util)
addNodeAnomalies() (in module gemben.utils.graph_util)
average_degree() (in module gemben.utils.lrf_gen)
B
barabasi_albert_graph() (in module gemben.utils.graph_gens)
barbell_graph() (in module gemben.utils.graph_gens)
BayesianOpt (class in gemben.utils.bayesian_opt)
,
[1]
benchmark() (in module gemben.utils.lrf_gen)
binary_community_graph() (in module gemben.utils.graph_gens)
C
CommonNeighbors (class in gemben.embedding.cn)
computeMAP() (in module gemben.evaluation.metrics)
computePrecisionCurve() (in module gemben.evaluation.metrics)
convert() (in module gemben.utils.kronecker_generator)
D
deleteSelfLoops() (in module gemben.utils.kronecker_generator)
duplication_divergence_graph() (in module gemben.utils.graph_gens)
E
evaluateNodeClassification() (in module gemben.evaluation.evaluate_node_classification)
evaluateStaticGraphReconstruction() (in module gemben.evaluation.evaluate_graph_reconstruction)
evaluateStaticLinkPrediction() (in module gemben.evaluation.evaluate_link_prediction)
expGR() (in module gemben.evaluation.evaluate_graph_reconstruction)
expLP() (in module gemben.evaluation.evaluate_link_prediction)
expLPT() (in module gemben.evaluation.evaluate_link_prediction)
expNC() (in module gemben.evaluation.evaluate_node_classification)
expVis() (in module gemben.evaluation.visualize_embedding)
G
gemben.embedding.aa (module)
gemben.embedding.cn (module)
gemben.embedding.gf (module)
gemben.embedding.hope (module)
gemben.embedding.jc (module)
gemben.embedding.lap (module)
gemben.embedding.lle (module)
gemben.embedding.node2vec (module)
gemben.embedding.pa (module)
gemben.embedding.rand (module)
gemben.embedding.sdne (module)
gemben.embedding.sdne_utils (module)
gemben.evaluation.evaluate_graph_reconstruction (module)
gemben.evaluation.evaluate_link_prediction (module)
gemben.evaluation.evaluate_node_classification (module)
gemben.evaluation.metrics (module)
gemben.evaluation.visualize_embedding (module)
gemben.experiments.exp (module)
gemben.experiments.exp_bay (module)
gemben.experiments.exp_benchmark2 (module)
gemben.utils.bayesian_opt (module)
,
[1]
gemben.utils.embed_util (module)
gemben.utils.graph_gens (module)
gemben.utils.graph_util (module)
gemben.utils.kronecker_generator (module)
gemben.utils.kronecker_init_matrix (module)
gemben.utils.lrf_gen (module)
gemben.utils.plot_util (module)
generateStochasticKron() (in module gemben.utils.kronecker_generator)
get_edge_weight() (gemben.embedding.aa.AdamicAdar method)
(gemben.embedding.cn.CommonNeighbors method)
(gemben.embedding.gf.GraphFactorization method)
(gemben.embedding.hope.HOPE method)
(gemben.embedding.jc.JaccardCoefficient method)
(gemben.embedding.lap.LaplacianEigenmaps method)
(gemben.embedding.lle.LocallyLinearEmbedding method)
(gemben.embedding.node2vec.node2vec method)
(gemben.embedding.pa.PreferentialAttachment method)
(gemben.embedding.rand.RandomEmb method)
(gemben.embedding.sdne.SDNE method)
get_embedding() (gemben.embedding.aa.AdamicAdar method)
(gemben.embedding.cn.CommonNeighbors method)
(gemben.embedding.gf.GraphFactorization method)
(gemben.embedding.hope.HOPE method)
(gemben.embedding.jc.JaccardCoefficient method)
(gemben.embedding.lap.LaplacianEigenmaps method)
(gemben.embedding.lle.LocallyLinearEmbedding method)
(gemben.embedding.node2vec.node2vec method)
(gemben.embedding.pa.PreferentialAttachment method)
(gemben.embedding.rand.RandomEmb method)
(gemben.embedding.sdne.SDNE method)
get_method_name() (gemben.embedding.aa.AdamicAdar method)
(gemben.embedding.cn.CommonNeighbors method)
(gemben.embedding.gf.GraphFactorization method)
(gemben.embedding.hope.HOPE method)
(gemben.embedding.jc.JaccardCoefficient method)
(gemben.embedding.lap.LaplacianEigenmaps method)
(gemben.embedding.lle.LocallyLinearEmbedding method)
(gemben.embedding.node2vec.node2vec method)
(gemben.embedding.pa.PreferentialAttachment method)
(gemben.embedding.rand.RandomEmb method)
(gemben.embedding.sdne.SDNE method)
get_method_summary() (gemben.embedding.aa.AdamicAdar method)
(gemben.embedding.cn.CommonNeighbors method)
(gemben.embedding.gf.GraphFactorization method)
(gemben.embedding.hope.HOPE method)
(gemben.embedding.jc.JaccardCoefficient method)
(gemben.embedding.lap.LaplacianEigenmaps method)
(gemben.embedding.lle.LocallyLinearEmbedding method)
(gemben.embedding.node2vec.node2vec method)
(gemben.embedding.pa.PreferentialAttachment method)
(gemben.embedding.rand.RandomEmb method)
(gemben.embedding.sdne.SDNE method)
get_node_color() (in module gemben.utils.plot_util)
get_reconstructed_adj() (gemben.embedding.aa.AdamicAdar method)
(gemben.embedding.cn.CommonNeighbors method)
(gemben.embedding.gf.GraphFactorization method)
(gemben.embedding.hope.HOPE method)
(gemben.embedding.jc.JaccardCoefficient method)
(gemben.embedding.lap.LaplacianEigenmaps method)
(gemben.embedding.lle.LocallyLinearEmbedding method)
(gemben.embedding.node2vec.node2vec method)
(gemben.embedding.pa.PreferentialAttachment method)
(gemben.embedding.rand.RandomEmb method)
(gemben.embedding.sdne.SDNE method)
getMetricsHeader() (in module gemben.evaluation.metrics)
getPrecisionReport() (in module gemben.evaluation.metrics)
GraphFactorization (class in gemben.embedding.gf)
H
HOPE (class in gemben.embedding.hope)
hyperbolic_graph() (in module gemben.utils.graph_gens)
I
InitMatrix (class in gemben.utils.kronecker_init_matrix)
integral() (in module gemben.utils.lrf_gen)
J
JaccardCoefficient (class in gemben.embedding.jc)
L
LaplacianEigenmaps (class in gemben.embedding.lap)
learn_embedding() (gemben.embedding.aa.AdamicAdar method)
(gemben.embedding.cn.CommonNeighbors method)
(gemben.embedding.gf.GraphFactorization method)
(gemben.embedding.hope.HOPE method)
(gemben.embedding.jc.JaccardCoefficient method)
(gemben.embedding.lap.LaplacianEigenmaps method)
(gemben.embedding.lle.LocallyLinearEmbedding method)
(gemben.embedding.node2vec.node2vec method)
(gemben.embedding.pa.PreferentialAttachment method)
(gemben.embedding.rand.RandomEmb method)
(gemben.embedding.sdne.SDNE method)
lfr_benchmark_graph() (in module gemben.utils.graph_gens)
LocallyLinearEmbedding (class in gemben.embedding.lle)
N
node2vec (class in gemben.embedding.node2vec)
O
optimization_func() (gemben.utils.bayesian_opt.BayesianOpt method)
,
[1]
optimize() (gemben.utils.bayesian_opt.BayesianOpt method)
,
[1]
P
plot() (in module gemben.utils.plot_util)
plot_embedding2D() (in module gemben.evaluation.visualize_embedding)
plot_F1() (in module gemben.utils.plot_util)
plot_hist() (in module gemben.utils.graph_gens)
plot_hyp() (in module gemben.utils.plot_util)
plot_hyp_all() (in module gemben.utils.plot_util)
plot_hyp_data() (in module gemben.utils.plot_util)
plot_hyp_data2() (in module gemben.utils.plot_util)
plot_p_at_k() (in module gemben.utils.plot_util)
plot_ts() (in module gemben.utils.plot_util)
plotExpRes() (in module gemben.utils.plot_util)
powerlaw_cluster_graph() (in module gemben.utils.graph_gens)
predict() (gemben.evaluation.evaluate_node_classification.TopKRanker method)
PreferentialAttachment (class in gemben.embedding.pa)
print_graph_stats() (in module gemben.utils.graph_util)
R
r_mat_graph() (in module gemben.utils.graph_gens)
random_geometric_graph() (in module gemben.utils.graph_gens)
RandomEmb (class in gemben.embedding.rand)
randwalk_DiGraph_to_adj() (in module gemben.utils.graph_util)
reorient() (in module gemben.utils.embed_util)
S
sample_graph() (in module gemben.utils.graph_util)
sample_graph_rw() (in module gemben.utils.graph_util)
SDNE (class in gemben.embedding.sdne)
search_space() (gemben.utils.bayesian_opt.BayesianOpt method)
,
[1]
solve_dmin() (in module gemben.utils.lrf_gen)
stochastic_block_model() (in module gemben.utils.graph_gens)
stochastic_kronecker_graph() (in module gemben.utils.graph_gens)
T
TopKRanker (class in gemben.evaluation.evaluate_node_classification)
transform_adj_to_DiGraph() (in module gemben.utils.graph_util)
transform_DiGraph_to_adj() (in module gemben.utils.graph_util)
truncate() (in module gemben.utils.graph_gens)
turn_latex() (in module gemben.utils.plot_util)
W
watts_strogatz_graph() (in module gemben.utils.graph_gens)
waxman_graph() (in module gemben.utils.graph_gens)