mergeFunc

From aCGH v1.50.0 by Peter Dimitrov

Funtion to merge states based on their state means

mergeFunc takes the output of hmm.run.func (or find.hmm.states) with a particular model selection criterion and iteratively merges the states with means closer than a supplied threshold. mergeHmmStates is a frontend for mergeFunc using aCGH object.

Keywords: models

Usage

mergeHmmStates(aCGH.obj, model.use = 1, minDiff = 0.25)
mergeFunc(statesres, minDiff = 0.1)

Arguments

aCGH.obj: Object of class aCGH.
statesres: the sublist of the states.hmm list output from find.hmm.states for a given model selection crterion
minDiff: The states whose predicted values are less than minDiff apart are merged into one state and all the predicited values are recomputed.
model.use: Model selection criterion to use, See find.hmm.states.

Details

This function is intended to reduce effect of the possible small magnitude technological artifacts on the structure determination.

Value

List containing states.hmm object is returned.

References

Application of Hidden Markov Models to the analysis of the array CGH data, Fridlyand et.al., JMVA, 2004

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