mergeFunc

0th

Percentile

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

See Also

aCGH, find.hmm.states

Aliases
  • mergeFunc
  • mergeHmmStates
Documentation reproduced from package aCGH, version 1.50.0, License: GPL-2

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