plotMDT: Plot MDT objects

In olivmrtn/MachineLearningGWAS: Machine Learning for Genome Wide Association Studies

Description

Various plots for MDT objects.

Usage

plotMDT(x, type = c("scatter", "heatmap"), preprocess = c("scale", "center",
  "pca"), space = c("samples", "features"), dims = c(1L, 2L), fill = NA,
  ...)

## S4 method for signature 'MDT'
plotMDT(x, type = c("scatter", "heatmap"),
  preprocess = c("scale", "center", "pca"), space = c("samples",
  "features"), dims = c(1L, 2L), fill = NA, ...)

Arguments

x	MDT object.
type	Type of plot scatter: Scatter plot using geom_point heatmap: Heatmap using heatmap.2
preprocess	Preprocessing transformation. Choose from 'scale', 'center' and 'pca'.
space	For y='scatter', specifies if should plot feature space or sample space.
dims	For y='scatter', specifies which features or samples should be plotted. Can be integers specifying column index or characters.
fill	Value to replace missing values in mtable.
...	Further arguments to be passed on to heatmap.2 or geom_point

olivmrtn/MachineLearningGWAS documentation built on May 24, 2019, 12:52 p.m.