getTransitionProbability {VanillaICE} | R Documentation

## Transition probabilities for the HMM

### Description

The default transition probabilities for the HMM can be a matrix with dimension S x S, where S is the number of hidden states. Alternatively, one may specify transition probabilities that are a function of the distance (in base pairs) between adjacent SNPs.

### Usage

    getTransitionProbability(object)

### Arguments

`object` | An object of one of the HMM classes defined in `ICE`

### Details

### Value

A transition probability matrix.

### Note

### Author(s)

### References

RB Scharpf et al. (2007), Department of Biostatistics Working Papers, Working Paper 136 and CITATION FOR MA NEWTON PAPER

### See Also

`distance`

### Examples

[Package VanillaICE version 1.0.2 Index]