buildReport {TarSeqQC} | R Documentation

## TargetExperiment auxiliar function.

### Description

`buildReport` builds an excel file containing some statistical results. These are computed to the selected attribute (e.g. 'coverage') along features (e.g. 'amplicon') and genes. If 'imageFile' is null, the graph generated calling the generic plot function will be used.

`ggplotColours` is a function to know what color is used when ggplot is called.

`addStatSummSheet` adds the statistics summary sheet to the workbook that contains the Target Experiment Report.

### Usage

    buildReport(object, attributeThres = c(0, 1, 50, 200, 500, Inf),
        imageFile = NULL, file= "Results.xlsx")

    ## S4 method for signature 'TargetExperiment'
    buildReport(object, attributeThres = c(0, 1, 50,
        200, 500, Inf), imageFile = NULL, file = "Results.xlsx")

    ggplotColours(object, n)

    ## S4 method for signature 'TargetExperiment'
    ggplotColours(object, n)

    ## S4 method for signature 'TargetExperimentList'
    ggplotColours(object, n)

    addStatSummSheet(object, wb, attributeThres = c(0, 1, 50, 200, 500, Inf),
        imageFile)

    ## S4 method for signature 'TargetExperiment'
    addStatSummSheet(object, wb,
        attributeThres = c(0, 1, 50, 200, 500, Inf), imageFile)

### Arguments

`object` | TargetExperiment class object.
`attributeThres` | Numeric indicating the intervals extreme values.
`imageFile` | Character indicating the name of the file that contains the plot that could be insert in the report.
`file` | Character indicating the name of the report.
`n` | amount of colors.
`wb` | A workbook object that will contain the report.

### Value

Workbook object.

colours.

### Note

see full example in `TargetExperiment-class`

### Author(s)

Gabriela A. Merino gmerino@bdmg.com.ar, Cristobal Fresno cfresno@bdmg.com.ar, Yanina Murua ymurua@leloir.org.ar, Andrea S. Llera allera@leloir.org.ar and Elmer A. Fernandez efernandez@bdmg.com.ar

### See Also

`TargetExperiment-class`

### Examples

    ## Loading the TargetExperiment object
    data(ampliPanel,package="TarSeqQC")
    # definition of the interval extreme values
    attributeThres<-c(0,1,50,200,500, Inf)

    ## Building the XLSX report
    imageFile<-system.file("extdata", "plot.pdf", package="TarSeqQC",
    mustWork=TRUE)
    buildReport(ampliPanel, attributeThres=attributeThres, imageFile=imageFile,
    file="results.xlsx")

    ## Loading the TargetExperimentList object
    data(ampliPanel, package="TarSeqQC")
    colors<-ggplotColours(ampliPanel, n=5)
    ## Loading the TargetExperimentList object
    data(TEList, package="TarSeqQC")
    colors<-ggplotColours(TEList, n=5)

[Package TarSeqQC version 1.16.0 Index]