| graph1D {made4} | R Documentation |
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.
graph1D(dfx, fac=NULL,ax = 1, hor=FALSE, s.nam=row.names(dfx), n=NULL,
scaled=TRUE, col="red", width=NULL, ...)
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. |
fac |
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 |
|
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(fac)) |
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 |
Aedin Culhane
between.graph
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)