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Graph Embedding

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14 December 2020


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Graph Embedding

Method

Model Paper
DeepWalk [KDD 2014] DeepWalk: Online Learning of Social Representations
LINE [WWW 2015] LINE: Large-scale Information Network Embedding
Node2Vec [KDD 2016] node2vec: Scalable Feature Learning for Networks
SDNE [KDD 2016] Structural Deep Network Embedding
Struc2Vec [KDD 2017] struc2vec: Learning Node Representations from Structural Identity

How to run examples

  1. clone the repo and make sure you have installed tensorflow or tensorflow-gpu on your local machine.
  2. run following commands
    python setup.py install
    cd examples
    python deepwalk_wiki.py
    

Usage

The design and implementation follows simple principles(graph in,embedding out) as much as possible.

Input format

we use networkxto create graphs.The input of networkx graph is as follows: node1 node2 <edge_weight>

DeepWalk

G = nx.read_edgelist('../data/wiki/Wiki_edgelist.txt',create_using=nx.DiGraph(),nodetype=None,data=[('weight',int)])# Read graph

model = DeepWalk(G,walk_length=10,num_walks=80,workers=1)#init model
model.train(window_size=5,iter=3)# train model
embeddings = model.get_embeddings()# get embedding vectors

LINE

G = nx.read_edgelist('../data/wiki/Wiki_edgelist.txt',create_using=nx.DiGraph(),nodetype=None,data=[('weight',int)])#read graph

model = LINE(G,embedding_size=128,order='second') #init model,order can be ['first','second','all']
model.train(batch_size=1024,epochs=50,verbose=2)# train model
embeddings = model.get_embeddings()# get embedding vectors

Node2Vec

G=nx.read_edgelist('../data/wiki/Wiki_edgelist.txt',
                        create_using = nx.DiGraph(), nodetype = None, data = [('weight', int)])#read graph

model = Node2Vec(G, walk_length = 10, num_walks = 80,p = 0.25, q = 4, workers = 1)#init model
model.train(window_size = 5, iter = 3)# train model
embeddings = model.get_embeddings()# get embedding vectors

SDNE

G = nx.read_edgelist('../data/wiki/Wiki_edgelist.txt',create_using=nx.DiGraph(),nodetype=None,data=[('weight',int)])#read graph

model = SDNE(G,hidden_size=[256,128]) #init model
model.train(batch_size=3000,epochs=40,verbose=2)# train model
embeddings = model.get_embeddings()# get embedding vectors

Struc2Vec

G = nx.read_edgelist('../data/flight/brazil-airports.edgelist',create_using=nx.DiGraph(),nodetype=None,data=[('weight',int)])#read graph

model = model = Struc2Vec(G, 10, 80, workers=4, verbose=40, ) #init model
model.train(window_size = 5, iter = 3)# train model
embeddings = model.get_embeddings()# get embedding vectors

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