MVP.Hist {rMVP}

Phenotype distribution histogram

Description

Phenotype distribution histogram

Usage

MVP.Hist(
  phe,
  col = c("dodgerblue4", "olivedrab4", "violetred", "darkgoldenrod1", "purple4"),
  breakNum = 15,
  memo = NULL,
  outpath = getwd(),
  test.method = "auto",
  file.type = "pdf",
  file.output = TRUE,
  dpi = 300
)

Arguments

phe

phenotype data

col

The color vector of the histogram. If the number of colors is less than break.n, the color will be reused. If the number of colors is greater than break.n, only the previous break.n colors will be used.

breakNum

the number of cells for the histogram. The default value is 15.

memo

Character. A text marker on output files

outpath

Effective only when file.output = TRUE, determines the path of the output file

test.method

The method used to test the normal distribution. The options are "auto", "Shapiro-Wilk", "Kolmogorov-Smirnov", and NULL. When set to "auto", "Shapiro- Wilk" method, "Kolmogorov-Smirnov" method will be used when it is greater than 5000, and it will not be tested when set to NULL.

file.type

A string or NULL is used to determine the type of output file. Can be "jpg", "pdf", "tiff". If it is NULL, it will use dev.new() to create a new graphics device in the current environment, which may be RStudioGD or the default device of the system.

file.output

Logical value. If TRUE, the figures will be generated.

dpi

The resolution of the image, specifying how many pixels per inch.

Value

Output file: MVP.Phe_Distribution.<trait>.<type>

Examples

phePath <- system.file("extdata", "07_other", "mvp.phe", package = "rMVP")
phe <- read.table(phePath, header=TRUE)

MVP.Hist(phe, file.output = FALSE)