signet: Selection Inference in Gene NETworks


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Documentation for package ‘signet’ version 1.2.3

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.Signet An S4 class to represent a pathway and the results of the associated simulated annealing run.
.SignetList An S4 class to represent a list of "Signet" objects.
initialize-method An S4 class to represent a pathway and the results of the associated simulated annealing run.
initialize-method An S4 class to represent a list of "Signet" objects.
kegg_human Pathway examples. See 'browseVignettes("signet")' to see how to prepare the pathways for running simulated annealing.
nullDist Null distribution
plot-method An S4 class to represent a pathway and the results of the associated simulated annealing run.
scores Example of gene selection scores.
searchSubnet Search for a high scoring subnetwork
show-method An S4 class to represent a pathway and the results of the associated simulated annealing run.
signet Selection Inference in Gene NETworks
Signet-class An S4 class to represent a pathway and the results of the associated simulated annealing run.
SignetList-class An S4 class to represent a list of "Signet" objects.
summary-method An S4 class to represent a pathway and the results of the associated simulated annealing run.
summary-method An S4 class to represent a list of "Signet" objects.
testSubnet Test the significance of high-scoring subnetworks found using simulated annealing.
writeXGMML Write Cytoscape input file
[-method An S4 class to represent a list of "Signet" objects.
[[ An S4 class to represent a list of "Signet" objects.
[[-method An S4 class to represent a list of "Signet" objects.