Shortcuts, Detours and Dead Ends (SDDE) Path Types in Genome Similarity Networks

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Documentation for package ‘SDDE’ version 1.0.0

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SDDE-package Shortcuts, Detours and Dead Ends (SDDE) Path Types in Genome Similarity Networks
complete_network compare two given networks (original and augmented, presented as undirected graphs) using a path analysis
complete_restart compares two given networks (original and augmented, presented as undirected graphs) using a path analysis
complete_trace return properties of a single path in two given networks (original and augmented, presented as undirected graphs) using a path analysis
Eukaryote_nonphoto An original and an augmented real genomic networks
Eukaryote_photo An original and an augmented real genomic networks
g1 generic name for network X
g2 generic name for network Y
info_network returns additional information regarding the networks X and Y (original and augmented).
info_node returns additional information regarding the nodes of networks X and Y (original and augmented)
load_network is a helper function to load networks from files
Plasmids An original and an augmented real genomic networks
random_network creates random augmented networks X and Y
Sample_1 An original network X with 11 nodes and an augmented network Y of 14 nodes
Sample_2 An network X of 6 nodes and an augmented network Y with 7 nodes
sample_network compares two networks using a path analysis of total pathways
sample_path is a helper function that creates a vector of non-repeating pathways to investigate
save_network is an helper function to save an illustration of a network into a file
save_network_big Helper function to save an illustration of a network to file with more than 50 nodes.
SDDE Shortcuts, Detours and Dead Ends (SDDE) Path Types in Genome Similarity Networks
Viruses An original and an augmented real genomic networks