Description Usage Arguments Details Examples

Function to plot the estimated profiles of copy number data.

1 2 | ```
plotEstProfile(sampleName='', chr, position, logratio, chrToBePlotted, estPC, maxProbeNumber,
legendPosition='bottomleft', regrCurve=NULL, regr=NULL)
``` |

`sampleName` |
name of the sample, if the user wants to put it in the title of the graph |

`chr` |
array containing the name of the chromosome to which each probe belongs. The possible values of the elements of |

`position` |
array containing the physical position of each probe |

`logratio` |
array containing the log2ratio of the raw copy number data |

`chrToBePlotted` |
array containing the name of the estimated chromosomes, that the user wants to plot. The possible values of the chromosomes are: the integers from 1 to 22, 'X' and 'Y'. |

`estPC` |
array containing the estimated copy number profile as a piecewise constant function. If |

`maxProbeNumber` |
maximum number of probes that a chromosome (or arm of a chromosome) can have to be analyzed. The procedure of profile estimation
needs the computation of an array of length |

`legendPosition` |
string containing the position of the legend in the plot. The possible values are the same used in the function |

`regrCurve` |
array containing the estimated regression curve. If |

`regr` |
choice of the computation of the regression curve. If |

The function plots the estimated profiles of the chromosomes of `chrToBePlotted`

, separately.

1 2 3 4 5 6 | ```
##import the 10K data of cell line REC
data(rec10k)
##estimation of chromosomes 3 and 5
results <- estProfileWithMBPCR(rec10k$SNPname, rec10k$Chromosome, rec10k$PhysicalPosition, rec10k$log2ratio, chrToBeAnalyzed=c(3,5), maxProbeNumber=2000)
##plot the corresponding estimated profiles
plotEstProfile(sampleName='rec10k', rec10k$Chromosome, rec10k$PhysicalPosition, rec10k$log2ratio, chrToBePlotted=c(3,5), results$estPC, maxProbeNumber=2000)
``` |

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