find.param.two {snapCGH} | R Documentation

## Yields output when there are 2 underlying states

### Description

This function provides the output (means/variances, transition matrix, likelihood) when the heterogeneous HMM is fitted with two underlying states. It is a workhorse of the process.data function.

### Usage

    find.param.two(output.optim,var.fixed)

### Arguments

`output.optim` | The output from fitting a heterogeneous HMM when there are two underlying states
`var.fixed` | Logical variable - TRUE if you want to tie the variance across states. Defaults to FALSE

### Value

This function outputs the state means/variances, transition matrices, rate parameters, maximised likelihood and convergence information provided by fitting a heterogeneous HMM with two underlying states.

### Author(s)

John Marioni

[Package snapCGH version 1.50.0 Index]