Realised the graph of individuals colored after a variable categories
graphHab(res, file = "", dim = 1:2, hab = NULL, ellipse = TRUE, Iselec = "contrib",
Rselec = "cos2", Cselec = "contrib", Icoef = 1, Rcoef = 1, Ccoef = 1,
figure.title = "Figure", graph = TRUE, cex = 0.7, options = NULL)
an object of class PCA, CA or MCA.
the file path where to write the description in Rmarkdown language. If not specified, the description is written in the console.
a 2 dimensional numerical vector giving the factorial dimensions to use for the representation (by default the first plane).
a variable name or index to use to color the individuals (or rows) among the variable categories.
a boolean : if TRUE, ellipses are plotted with the coloration of individuals (or rows).
the individuals to select ; see the details section.
the rows to select (for a CA res object) ; see the details section.
the columns to select (for a CA res object) ; see the details section.
a numerical coefficient to adjust the individuals selection rule ; see the details section.
a numerical coefficient to adjust the rows selection rule (for a CA res object) ; see the details section.
a numerical coefficient to adjust the columns selection rule (for a CA res object) ; see the details section.
the text label to add before graph title.
a boolean : if TRUE, graphs are ploted.
an optional argument for the generic plot functions, used to adjust the size of the elements plotted.
a character string that gives the output options fir the figures.
If NULL, options="r, echo = FALSE, fig.align = 'center', fig.height = 3.5, fig.width = 5.5" for linux and Mac
and options="r, echo = FALSE, fig.height = 3.5, fig.width = 5.5" for Windows
Simon Thuleau and Francois Husson
The Iselec argument (respectively Rselec or Cselec) is used in order to select a part of the elements that are drawn and described. For example, you can use either :
- Iselec = 1:5 then the individuals (respectively the rows or the columns) numbered 1 to 5 are drawn.
- Iselec = c("name1","name5") then the individuals (respectively the rows or the columns) named name1 and name5 are drawn.
- Iselec = "contrib 10" then the 10 active or illustrative individuals (respectively the rows or the columns) that have the highest contribution on the 2 dimensions of the plane are drawn.
- Iselec = "contrib" then the optimal number of active or illustrative individuals (respectively the rows or the columns) that have the highest contribution on the 2 dimensions of the plane are drawn.
- Iselec = "cos2 5" then the 5 active or illustrative individuals (respectively the rows or the columns) that have the highest cos2 on the 2 dimensions of the plane are drawn.
- Iselec = "cos2 0.8" then the active or illustrative individuals (respectively the rows or the columns) that have a cos2 higher to 0.8 on the plane are drawn.
- Iselec = "cos2" then the optimal number of active or illustrative individuals (respectively the rows or the columns) that have the highest cos2 on the 2 dimensions of the plane are drawn.
The Icoef argument (respectively Rcoef or Ccoef) is used in order to adjust the selection of the elements when based on Iselec = "contrib" or Iselec = "cos2". For example :
- if Icoef = 2, the threshold is 2 times higher, and thus 2 times more restrictive.
- if Icoef = 0.5, the threshold is 2 times lower, and thus 2 times less restrictive.
factoGraph, graphInd, graphCA, graphVar, graphSup
if (FALSE) {
require(FactoMineR)
data(decathlon)
res.pca = PCA(decathlon, quanti.sup = c(11:12), quali.sup = c(13), graph = FALSE)
graphHab(res.pca)
}
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