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annotate planemo/lib/python3.7/site-packages/networkx/generators/intersection.py @ 1:56ad4e20f292 draft

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"planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
author guerler
date Fri, 31 Jul 2020 00:32:28 -0400
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1 # -*- coding: utf-8 -*-
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2 """
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3 Generators for random intersection graphs.
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4 """
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5 # Copyright (C) 2011 by
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6 # Aric Hagberg <hagberg@lanl.gov>
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7 # Dan Schult <dschult@colgate.edu>
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8 # Pieter Swart <swart@lanl.gov>
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9 # All rights reserved.
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10 # BSD license.
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11 import random
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12 import networkx as nx
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13 from networkx.algorithms import bipartite
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14 from networkx.utils import py_random_state
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15
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16 __author__ = "\n".join(['Aric Hagberg (hagberg@lanl.gov)'])
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17
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18 __all__ = ['uniform_random_intersection_graph',
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19 'k_random_intersection_graph',
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20 'general_random_intersection_graph',
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21 ]
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22
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23
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24 @py_random_state(3)
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25 def uniform_random_intersection_graph(n, m, p, seed=None):
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26 """Returns a uniform random intersection graph.
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27
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28 Parameters
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29 ----------
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30 n : int
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31 The number of nodes in the first bipartite set (nodes)
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32 m : int
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33 The number of nodes in the second bipartite set (attributes)
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34 p : float
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35 Probability of connecting nodes between bipartite sets
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36 seed : integer, random_state, or None (default)
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37 Indicator of random number generation state.
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38 See :ref:`Randomness<randomness>`.
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39
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40 See Also
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41 --------
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42 gnp_random_graph
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43
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44 References
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45 ----------
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46 .. [1] K.B. Singer-Cohen, Random Intersection Graphs, 1995,
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47 PhD thesis, Johns Hopkins University
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48 .. [2] Fill, J. A., Scheinerman, E. R., and Singer-Cohen, K. B.,
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49 Random intersection graphs when m = !(n):
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50 An equivalence theorem relating the evolution of the g(n, m, p)
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51 and g(n, p) models. Random Struct. Algorithms 16, 2 (2000), 156–176.
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52 """
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53 G = bipartite.random_graph(n, m, p, seed)
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54 return nx.projected_graph(G, range(n))
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55
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56
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57 @py_random_state(3)
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58 def k_random_intersection_graph(n, m, k, seed=None):
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59 """Returns a intersection graph with randomly chosen attribute sets for
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60 each node that are of equal size (k).
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61
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62 Parameters
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63 ----------
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64 n : int
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65 The number of nodes in the first bipartite set (nodes)
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66 m : int
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67 The number of nodes in the second bipartite set (attributes)
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68 k : float
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69 Size of attribute set to assign to each node.
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70 seed : integer, random_state, or None (default)
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71 Indicator of random number generation state.
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72 See :ref:`Randomness<randomness>`.
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73
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74 See Also
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75 --------
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76 gnp_random_graph, uniform_random_intersection_graph
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77
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78 References
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79 ----------
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80 .. [1] Godehardt, E., and Jaworski, J.
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81 Two models of random intersection graphs and their applications.
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82 Electronic Notes in Discrete Mathematics 10 (2001), 129--132.
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83 """
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84 G = nx.empty_graph(n + m)
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85 mset = range(n, n + m)
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86 for v in range(n):
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87 targets = seed.sample(mset, k)
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88 G.add_edges_from(zip([v] * len(targets), targets))
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89 return nx.projected_graph(G, range(n))
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90
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91
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92 @py_random_state(3)
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93 def general_random_intersection_graph(n, m, p, seed=None):
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94 """Returns a random intersection graph with independent probabilities
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95 for connections between node and attribute sets.
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96
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97 Parameters
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98 ----------
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99 n : int
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100 The number of nodes in the first bipartite set (nodes)
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101 m : int
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102 The number of nodes in the second bipartite set (attributes)
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103 p : list of floats of length m
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104 Probabilities for connecting nodes to each attribute
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105 seed : integer, random_state, or None (default)
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106 Indicator of random number generation state.
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107 See :ref:`Randomness<randomness>`.
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108
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109 See Also
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110 --------
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111 gnp_random_graph, uniform_random_intersection_graph
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112
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113 References
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114 ----------
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115 .. [1] Nikoletseas, S. E., Raptopoulos, C., and Spirakis, P. G.
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116 The existence and efficient construction of large independent sets
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117 in general random intersection graphs. In ICALP (2004), J. D´ıaz,
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118 J. Karhum¨aki, A. Lepist¨o, and D. Sannella, Eds., vol. 3142
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119 of Lecture Notes in Computer Science, Springer, pp. 1029–1040.
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120 """
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121 if len(p) != m:
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122 raise ValueError("Probability list p must have m elements.")
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123 G = nx.empty_graph(n + m)
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124 mset = range(n, n + m)
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125 for u in range(n):
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126 for v, q in zip(mset, p):
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127 if seed.random() < q:
56ad4e20f292 "planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
guerler
parents:
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128 G.add_edge(u, v)
56ad4e20f292 "planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
guerler
parents:
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129 return nx.projected_graph(G, range(n))