transpose: Function to transpose a data frame or a file

In PBR/PediHaplotyper: PediHaplotyper assigns haploblock alleles based on phased marker data in pedigrees

Description

This is a function to help in formatting the input and/or output data of PediHaplotyper. It transposes a data frame or file, with some differences from t().

Usage

transpose(source, target = "", sep = "", skip = 0, 
  na.strings = "NA", sep.out = "\t", na.out = "", ...)

Arguments

source	Either a data frame or a file name: the data to be transposed. If a file name, the file should be readable by read.table() with header=TRUE; all other parameters for read.table have the default values of read.table but can be specified.
target	Ignored if source is a data frame, else the name of the transposed file
sep	Ignored if source is a data frame, else the separator (passed to read.table)
skip	Ignored if source is a data frame, else the number of lines to skip (passed to read.table)
na.strings	Ignored if source is a data frame, else the strings used to represent NA values (passed to read.table)
sep.out	Ignored if source is a data frame, else the separator to be used in the target file
na.out	Ignored if source is a data frame, else the representation of NA values to be used in the target file
...	Ignored if source is a data frame, else further parameters to be passed to read.table

Details

This function transposes a data frame such that the original column names go to the first column (which is called "name") and the original contents of the first column become the column names. Row names are ignored. If source is a file name the file is read using read.table; it must contain a header line, but in contrast to read.table the headers are not modified if they are not valid identifiers or if duplicate headers occur. The column names of the transposed data frame may be invalid as identifiers and/or duplicate column names may occur, depending on the contents of the first column of the source data frame. Invalid column names do not affect any of the PediHaplotyper functions.

Value

The return value is always the transposed data frame. If source and target are file names also the target file is created, overwriting any previous file.

Examples

data(mrkdat) # a data frame with data for two markers and two individuals
mrkdat
transpose(mrkdat)

PBR/PediHaplotyper documentation built on Feb. 3, 2021, 12:03 a.m.