graph1D {made4} | R Documentation

## Plot 1D graph of axis from multivariate analysis

### Description

Draw 1D plot of an axis from multivariate analysis. Useful for visualising an individual axis from analyses such as PCA `dudi.pca` or COA `dudi.coa`. It accepts a factor so that groups of points can be coloured. It can also be used for graphing genes, and will only label n genes at the ends of the axis.

### Usage

    graph1D(dfx,  classvec=NULL,ax = 1, hor=FALSE, s.nam=row.names(dfx), n=NULL,
           scaled=TRUE, col="red", width=NULL, ...)

### Arguments

`dfx` | `vector`, `matrix`, or `data.frame`, which contains a column with axis coordinates
`ax` | Numeric, indicating column of `matrix`, or `data.frame` to be plotted. The default is 1.
`classvec` | Factor, indicating sub-groupings or classes in dfx or dfx[,ax]
`hor` | Logical, indicating whether the graph should be drawn horizontal or vertically. The default is vertically.
`s.nam` | Vector. labels of dfx, The default is row.names(dfx)
`n` | Numeric. Whether all rows should be plotted, n=10 would label only the 10 variables at the end of the axis. By default all variables (row of dfx) are labelled
`scaled` | A logical indicating whether the plot should be scaled to fit. The default is TRUE
`col` | A character or vector indicating the colour(s) for points or groups of points. If points are to be coloured according to a factor, length(col) should equal length(levels(classvec))
`width` | A vector of length 2, which is the width (of a vertical plot) or height (of a horizontal plot). This can be increased if variable labels are unreadable. The default is c(-2,1)
`...` | further arguments passed to or from other methods

### Author(s)

Aedin Culhane

### See Also

`between.graph`

### Examples

    a<-rnorm(25)
    graph1D(a, s.nam=letters[1:25])
    graph1D(a, s.nam=letters[1:25], col="blue", pch=19,  n=3)
    data(khan)
    if (require(ade4, quiet = TRUE)) {
    khan.coa<-dudi.coa(khan$train, scan=FALSE, nf=2)
    }
    graph1D(khan.coa$co, ax=1)

[Package made4 version 1.68.0 Index]