row.summary {chopsticks} | R Documentation

## Summarize rows of a snp matrix

### Description

This function calculates call rates and heterozygosity for each row of a an object of class `"snp.matrix"`

### Usage

    row.summary(object)

### Arguments

`object` | genotype data as a `snp.matrix-class` or `X.snp.matrix-class` object

### Value

A data frame with rows corresponding to rows of the input object and with columns/elements:

`Call.rate` | Proportion of SNPs called
`Heterozygosity` | Proportion of called SNPs which are heterozygous

### Note

The current version does not deal with the X chromosome differently, so that males are counted as homozygous

### Author(s)

David Clayton david.clayton@cimr.cam.ac.uk

### Examples

    data(testdata)
    rs <- row.summary(Autosomes)
    summary(rs)
    rs <- row.summary(Xchromosome)
    summary(rs)

[Package chopsticks version 1.46.0 Index]