write.SnpMatrix {snpStats} | R Documentation

## Write a SnpMatrix object as a text file

### Description

This function is closely modelled on `write.table`. It writes an object of class `SnpMatrix` as a text file with one line for each row of the matrix. Genotpyes are written in numerical form, i.e. as 0, 1 or 2 (where 1 denotes heterozygous) or, optionally, as a pair of alleles (each coded 1 or 2).

### Usage

    write.SnpMatrix(x, file, as.alleles= FALSE, append = FALSE, quote = TRUE, sep = " ", eol = "\n", na = "NA", row.names = TRUE, col.names = TRUE)

### Arguments

`x` | The object to be written
`file` | The name of the output file
`as.alleles` | If `TRUE`, write each genotype as two alleles
`append` | If `TRUE`, the output is appended to the designated file. Otherwise a new file is opened
`quote` | If `TRUE`, row and column names will be enclosed in quotes
`sep` | The string separating entries within a line
`eol` | The string terminating each line
`na` | The string written for missing genotypes
`row.names` | If `TRUE`, each row will commence with the row name
`col.names` | If `TRUE`, the first line will contain all the column names

### Value

A numeric vector giving the dimensions of the matrix written

### Author(s)

David Clayton dc208@cam.ac.uk

### See Also

`write.table`, `SnpMatrix-class`, `XSnpMatrix-class`

[Package snpStats version 1.32.0 Index]