Course Notes
Use this workspace to take notes, store code snippets, or build your own interactive cheatsheet! The datasets used in this course are available in the datasets folder.
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Take Notes
Add notes here about the concepts you've learned and code cells with code you want to keep.
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What is the size of the graph T, the type of T.nodes(), and the data structure of the third element of the last edge listed in T.edges(data=True)? The len() and type() functions will be useful here. To access the last entry of T.edges(data=True), you can use list(T.edges(data=True))[-1].
# Import necessary modules
import matplotlib.pyplot as plt
import networkx as nx
# Draw the graph to screen
nx.draw(T_sub)
plt.show()# Use a list comprehension to get the nodes of interest: noi
noi = [n for n, d in T.nodes(data=True) if d['occupation'] == 'scientist']
# Use a list comprehension to get the edges of interest: eoi
eoi = [(u, v) for u, v, d in T.edges(data=True) if d['date'] < date(2010, 1, 1)]network_name.edges[node1, node2]['attribute'] = value. Here, the 'attribute' is 'weight'
# Set the weight of the edge
T.edges[1, 10]['weight'] = 2
# Iterate over all the edges (with metadata)
for u, v, d in T.edges(data=True):
# Check if node 293 is involved
if 293 in [u, v]:
# Set the weight to 1.1
T.edges[u, v]['weight'] = 1.1# Define find_selfloop_nodes()
def find_selfloop_nodes(G):
"""
Finds all nodes that have self-loops in the graph G.
"""
nodes_in_selfloops = []
# Iterate over all the edges of G
for u, v in G.edges(data=False):
# Check if node u and node v are the same
if u == v:
# Append node u to nodes_in_selfloops
nodes_in_selfloops.append(u)
return nodes_in_selfloops
# Check whether number of self loops equals the number of nodes in self loops
assert T.number_of_selfloops() == len(find_selfloop_nodes(T))Visualizing using Matrix plots It is time to try your first "fancy" graph visualization method: a matrix plot. To do this, nxviz provides a MatrixPlot object.
nxviz is a package for visualizing graphs in a rational fashion. Under the hood, the MatrixPlot utilizes nx.to_numpy_matrix(G), which returns the matrix form of the graph. Here, each node is one column and one row, and an edge between the two nodes is indicated by the value 1. In doing so, however, only the weight metadata is preserved; all other metadata is lost, as you'll verify using an assert statement.
A corresponding nx.from_numpy_matrix(A) allows one to quickly create a graph from a NumPy matrix. The default graph type is Graph(); if you want to make it a DiGraph(), that has to be specified using the create_using keyword argument, e.g. (nx.from_numpy_matrix(A, create_using=nx.DiGraph)).
One final note, matplotlib.pyplot and networkx have already been imported as plt and nx, respectively, and the graph T has been pre-loaded. For simplicity and speed, we have sub-sampled only 100 edges from the network.
# Import nxviz
import nxviz as nv
# Create the MatrixPlot object: m
m = nv.MatrixPlot(T)
# Draw m to the screen
m.draw()
# Display the plot
plt.show()
# Convert T to a matrix format: A
A = nx.to_numpy_matrix(T)
# Convert A back to the NetworkX form as a directed graph: T_conv
T_conv = nx.from_numpy_matrix(A, create_using=nx.DiGraph())
# Check that the `category` metadata field is lost from each node
for n, d in T_conv.nodes(data=True):
assert 'category' not in d.keys()