Description Creating Objects Slots Methods Author(s) See Also Examples
This is a class representation of the output of the ternary
network posterior sampling algorithm implemented in the function
tnetpost
.
While one can create their own objects using the function
ternaryPost()
, this is highly discouraged. Typically this class
is created by running the tnetpost
function.
perturbationObj
:a matrix of perturbation experiments. Rows are genes and columns are experiments.
steadyStateObj
:a matrix of steady gene expression observations from a perturbation experiment. Rows are genes and columns are experiments.
geneNames
:a vector of gene names corresponding to the rows of the perturbationObj and steadyStateObj.
experimentNames
:a vector of experiment names corresponding to the columns of the perturbationObj and steadyStateObj.
scores
:the score of each sample
degreeObjs
:the in-degree vector for each sample
graphObjs
:the graph matrix for each sample
tableObjs
:the table matrix for each sample
inputParams
:the ternaryFitParameters object used
All named elements can be accessed and set in the standard way
(e.g. scores(object)
and scores(object)<-
).
Matthew N. McCall and Anthony Almudevar
tnetfit
, ternaryFitParameters-class
, ternaryFit-class
.
Almudevar A, McCall MN, McMurray H, Land H (2011). Fitting
Boolean Networks from Steady State Perturbation Data, Statistical
Applications in Genetics and Molecular Biology, 10(1): Article 47.
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