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).

1 |

`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 to |

`sampleNames` |
A vector with the names of the samples |

`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 default |

`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 function |

Willem Talloen and Tobias Verbeke

1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 | ```
## 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)
``` |

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