# graph1D: Plot 1D graph of axis from multivariate analysis In made4: Multivariate analysis of microarray data using ADE4

## 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

 1 2 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

between.graph

## Examples

 1 2 3 4 5 6 7 8 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) 

### Example output   Loading required package: ade4

Attaching package: 'gplots'

The following object is masked from 'package:stats':

lowess