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./networks
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human.edgelist
	This is the human PPI network. The first line has two numbers: column 1 is the number of nodes, column 2 is the number of edges.
yeast.edgelist
	This is the yeast PPI network. It has the same format as human.edgelist.
human-yeast-anchors.txt
	This is the 55,594 yeast-human protein pairs with E-value <= 10^-7. The first column contains human proteins, the second, yeast. The original data can be found in
		Kalecky, Karel, and Young-Rae Cho. "PrimAlign: PageRank-inspired Markovian alignment for large biological networks." Bioinformatics 34.13 (2018): i537-i546.
integrated-yeast-human.edgelist
	This is the integrated yeast-human network. Unlike the human and yeast networks, the first line DOES NOT contain the number of nodes and edges. This is because of node2vec's input format. The first 269120 are the human network, the next 88779 are the yeast, and the last 55594 are the anchors. "h" is in front of human proteins, "s" is in front of yeast. However, these are not strictly necessary since no names are shared.
integrated-yeast-human-numbered.edgelist
	integrated-yeast-human.edgelist, but every protein is assigned a unique number ID.
integrated-prot2num.map
	The mapping of protein ID to number ID for the above networks.
.gw files
	These are the required network format for the protein functional prediction framework.


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./embeddings
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integrated-yeast-human.emb
	This file is the direct output of node2vec. The first line contais the size of the feature matrix. The remaining are the node (first column) and its feature vector.

human.emb and yeast.emb
	These files are the integrated file split into the two species. The first column should contain the protein ID, and the remaining are the feature vector.


