Description Usage Arguments Details Value Author(s) See Also Examples

Creates a volcano plot for a specified coefficient of a linear model.

1 2 |

`fit` |
an |

`coef` |
index indicating which coefficient of the linear model is to be plotted. |

`style` |
character string indicating which significance statistic to plot on the y-axis. Possibilities are |

`highlight` |
number of top genes to be highlighted by name. |

`names` |
character vector of length |

`hl.col` |
color for the gene names. Only used if |

`xlab` |
character string giving label for x-axis |

`ylab` |
character string giving label for y-axis |

`pch` |
vector or list of plotting characters. |

`cex` |
numeric vector of plot symbol expansions. |

`...` |
any other arguments are passed to |

A volcano plot displays log fold changes on the x-axis versus a measure of statistical significance on the y-axis. Here the significance measure can be -log(p-value) or the B-statistics, which give the posterior log-odds of differential expression.

The plot is optionally annotated with the names of the most significant genes.

No value is returned but a plot is created on the current graphics device.

Gordon Smyth

An overview of presentation plots following the fitting of a linear model in LIMMA is given in 06.LinearModels.

1 | ```
# See lmFit examples
``` |

```
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