getCopyNumberLocation {VanillaICE} | R Documentation

## Typically the mean copy number for the hidden states

### Description

Use to provide default values of the copy number for the hidden states. We typically assume that the distribution of the observed copy number (after suitable transformation) is approximately Gaussian and centered at the true copy number.

### Usage

    getCopyNumberLocation(object)

### Arguments

`object` | An object of class `HmmSnpSet` or `HmmSnpCopyNumberSet`

### Details

By default, we assume that the true underlying copy number for a deletion is 1, 2 for a normal region (diploid), and 3 for an amplification.

### Value

numerical vector of locations for the Gaussian distribution for copy number

### Note

Not typically called directly

### Author(s)

who you are

### References

### See Also

### Examples

[Package VanillaICE version 1.0.2 Index]