mrkConsProfiles {pRoloc} | R Documentation

## Marker consensus profiles

### Description

A function to calculate average marker profiles.

### Usage

    mrkConsProfiles(object, fcol = "markers", method = mean)

### Arguments

`object` | An instance of class `MSnSet`.
`fcol` | Feature meta-data label (fData column name) defining the groups to be differentiated using different colours. Default is `markers`.
`method` | A `function` to average marker profiles. Default is `mean`.

### Value

A `matrix` of dimensions number of clusters (exluding unknowns) by number of fractions.

### Author(s)

Laurent Gatto and Lisa M. Breckels

### See Also

The `mrkHClust` function to produce a hierarchical cluster.

### Examples

    library("pRolocdata")
    data(dunkley2006)
    mrkConsProfiles(dunkley2006)
    mrkConsProfiles(dunkley2006, method = median)
    mm <- mrkConsProfiles(dunkley2006)
    ## Reorder fractions
    o <- order(dunkley2006$fraction)
    ## Plot mean organelle profiles using the
    ## default pRoloc colour palette.
    matplot(t(mm[, o]), type = "l",
            xlab = "Fractions", ylab = "Relative intensity",
            main = "Mean organelle profiles",
            col = getStockcol(), lwd = 2, lty = 1)
    ## Add a legend
    addLegend(markerMSnSet(dunkley2006), where = "topleft")

[Package pRoloc version 1.26.0 Index]