R: Comparison Between Two Haplotypes

diffHaplo {pegas} | R Documentation

## Comparison Between Two Haplotypes

### Description

This function compares two haplotypes and returns a summary of the differences.

### Usage

    diffHaplo(h, a = 1, b = 2)

### Arguments

`h` | an object of class `"haplotype"`.
`a, b` | two integers (or character strings) giving the indices (or labels) of the two haplotypes to be compared.

### Details

This function prints the number of transitions and transversions between both sequences, and returns a data frame with three columns giving the positions of the differences and the nucleotides in each sequence at these positions.

### Value

a data frame with three columns named `pos` (position of the differences) and the labels of the two haplotypes compared.

### Author(s)

Emmanuel Paradis

### See Also

`haploNet`, `haplotype`

### Examples

    data(woodmouse)
    h <- haplotype(woodmouse)
    diffHaplo(h) # compares the 1st and 2nd haplotypes
    diffHaplo(h, 1, 3)
    diffHaplo(h, "I", "III") # same than above but using labels

[Package pegas version 0.13 Index]