Description Usage Arguments Value See Also Examples

Plot results from Cox regression analysis for dual regulons

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

`tns` |
A 'TNS' object with regulons used to compute the dual regulon. |

`dualreg` |
A character string with the name of a dual regulon. |

`xlim` |
A numeric vector of length 2, i.e. xlim = c(x1, x2), indicating the limits of the plot for the first member of the dual regulon. If xlim = NULL, it will be derevided from the observed data ranges. Values must be in the range [-2,2]. |

`ylim` |
A numeric vector of length 2, i.e. ylim = c(y1, y2), indicating the limits of the plot for the second member of the dual regulon. If ylim = NULL, it will be derevided from the observed data ranges. Values must be in the range [-2,2]. If plotype='2D', ylim represents the two fixed values for the second member of the dual regulon. |

`hlim` |
A numeric vector of length 2, i.e. hlim = c(h1, h2), indicating the limits of the plot for the Hazard Ratio (HR). If hlim = NULL, it will be derevided from the observed data ranges. If plotype='2D', HR is represented in the y-axis. |

`hcols` |
A vector of length 2 indicating a diverging color scheme for the Hazard Ratio (HR). |

`showdata` |
A logical value indicating whether to show the original data used to fit linear model. |

`colorPalette` |
A string, which can be 'red', 'blue', 'redblue', or 'bluered'. Alternatively, it can be a vector of five colors or hex values. |

`fname` |
A string. The name of the PDF file (when plotpdf=TRUE). |

`fpath` |
A string. The directory where the file will be saved. |

`width` |
A numeric value. The width of the plot. |

`height` |
A numeric value. The height of the plot. |

`plotype` |
A string indicating '2D' of '3D' plot type. If plotype = '2D', the Hazard Ratio is represented in the y-axis. |

`plotpdf` |
A logical value. |

A Cox hazard model plot and statistics.

A 3D heatmap plot.

1 2 3 4 5 6 7 8 9 10 11 12 13 | ```
# load survival data
data(survival.data)
# load TNI-object
data(stni, package = "RTN")
# perform survival analysis for regulons
stns <- tni2tnsPreprocess(stni, survivalData = survival.data, time = 1, event = 2)
stns <- tnsGSEA2(stns, verbose=FALSE)
# run Cox regression for dual regulons
# stns <- tnsCoxInteraction(stns, stepFilter = FALSE)
# tnsPlotCoxInteraction(stns, dualreg = "FOXM1~PTTG1")
``` |

Embedding an R snippet on your website

Add the following code to your website.

For more information on customizing the embed code, read Embedding Snippets.