Description Usage Arguments Value See Also Examples
Given a TReNA object with Spearman as the solver, use the cor
function with method = "spearman"
to esimate coefficients for each transcription factor
as a predictor of the target gene's expression level.
1 2 | ## S4 method for signature 'SpearmanSolver'
run(obj)
|
obj |
An object of class SpearmanSolver |
The set of Spearman Correlation Coefficients between each transcription factor and the target gene.
Other solver methods: run,BayesSpikeSolver-method
,
run,EnsembleSolver-method
,
run,LassoPVSolver-method
,
run,LassoSolver-method
,
run,PearsonSolver-method
,
run,RandomForestSolver-method
,
run,RidgeSolver-method
,
run,SqrtLassoSolver-method
1 2 3 4 5 6 | # Load included Alzheimer's data, create a TReNA object with Bayes Spike as solver, and solve
load(system.file(package="trena", "extdata/ampAD.154genes.mef2cTFs.278samples.RData"))
target.gene <- "MEF2C"
tfs <- setdiff(rownames(mtx.sub), target.gene)
spearman.solver <- SpearmanSolver(mtx.sub, target.gene, tfs)
tbl <- run(spearman.solver)
|
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