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

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Documentation for package ‘SDDE’ version 1.0.1

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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
plot_network Helper function to display an illustration of a network.
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
SDDE.version Version information.
Viruses An original and an augmented real genomic networks