run,EnsembleSolver-method {trena} | R Documentation |
Given a TReNA object with Ensemble as the solver and a list of solvers
(default = "default.solvers"), estimate coefficients for each transcription factor
as a predictor of the target gene's expression level. The final scores for the ensemble
method combine all specified solvers to create a composite score for each transcription factor.
This method should be called using the solve
method on an appropriate TReNA object.
## S4 method for signature 'EnsembleSolver' run(obj)
obj |
An object of class Solver with "ensemble" as the solver string |
A data frame containing the scores for all solvers and two composite scores relating the target gene to each transcription factor. The two new scores are:
"concordance": a composite score created similarly to "extreme_score", but with each solver's score scaled using *atan(x)*. This score scales from 0-1
"pcaMax": a composite score created using the root mean square of the principal components of the individual solver scores
Other solver methods: run,BayesSpikeSolver-method
,
run,LassoPVSolver-method
,
run,LassoSolver-method
,
run,PearsonSolver-method
,
run,RandomForestSolver-method
,
run,RidgeSolver-method
,
run,SpearmanSolver-method
,
run,SqrtLassoSolver-method