probabilitiesPlot {a4Base} | R Documentation |
Function to plot the probabilities to belong to a certain class in binary classification problems. These probabilities are often calculated using a logistic regression model. The class membership of the samples is displayed using a colored strip (with legend below the plot).
probabilitiesPlot( proportions, classVar, sampleNames, plot = TRUE, barPlot = FALSE, layout = TRUE, main = NULL, sub = NULL, ... )
proportions |
A vector containing the calculated probabilities to belong to a certain class in binary classification problems. These probabilities are often calculated using a logistic regression model. |
classVar |
A vector containing the class where the sample belongs t |
sampleNames |
A vector with the names of the samp |
plot |
logical. If |
barPlot |
Should a barplot be drawn ( |
layout |
boolean indicating whether |
main |
Main title for the scores plot; if not supplied, 'Scores Plot' is used as a defaul |
sub |
Subtitle for the scores plot; if not supplied, the classification technique and the chosen number of features are displayed |
... |
Additional graphical parameters to pass to the plot functio |
no returned value, a plot is drawn in the current device.
Willem Talloen and Tobias Verbeke
## Not run: if (require(ALL)){ data(ALL, package = "ALL") ALL <- addGeneInfo(ALL) ALL$BTtype <- as.factor(substr(ALL$BT,0,1)) logRegRes <- logReg(geneSymbol = "HLA-DPB1", object = ALL, groups = "BTtype") # scoresplot probabilitiesPlot(proportions = logRegRes$fit, classVar = logRegRes$y, sampleNames = rownames(logRegRes), main = 'Probability of being a T-cell type ALL') # barplot probabilitiesPlot(proportions = logRegRes$fit, classVar = logRegRes$y, barPlot=TRUE, sampleNames = rownames(logRegRes), main = 'Probability of being a T-cell type ALL') } ## End(Not run)