read_geno-character-method: read genotype data from file to one of several available...

In kangar00: Kernel Approaches for Nonlinear Genetic Association Regression

read genotype data from file to one of several available objects, which can be passed to a GWASdata object GWASdata.

Description

read genotype data from file to one of several available objects, which can be passed to a GWASdata object GWASdata.

Usage

## S4 method for signature 'character'
read_geno(
  file.path,
  save.path = NULL,
  sep = " ",
  header = TRUE,
  use.fread = TRUE,
  use.big = FALSE,
  row.names = FALSE,
  ...
)

Arguments

file.path	character giving the path to the data file to be read
save.path	character containing the path for the backingfile
sep	character. A field delimeter. See read.big.matrix for details.
header	logical. Does the data set contain column names?
use.fread	logical. Should the dataset be read using the function fread fread from package data.table?
use.big	logical. Should the dataset be read using the function read.big.matrix from package bigmemory?
row.names	logical. Does the dataset include rownames?
...	further arguments to be passed to read_geno.

Details

If the data set contains rownames specified, set option has.row.names = TRUE.

Examples

## Not run: 
path <- system.file("extdata", "geno.txt", package = "kangar00")
geno <- read_geno(path, save.path = getwd(), sep = " ", use.fread = FALSE, row.names = FALSE)

## End(Not run)

kangar00 documentation built on May 29, 2024, 8:09 a.m.