expressionComp {miRcomp} | R Documentation

## Compare expression estimates between two methods

### Description

This function allows one to easily compare the expression estimates generated by two different algorithms. Feature / sample combinations that differ above a given threshold can be easily highlighted.

### Usage

    expressionComp(object1, qcThreshold1,
                               object2, qcThreshold2,
                               label1=NULL, label2=NULL,
                               diffThreshold=2,
                               plotType=c("scatterplot","MAplot"))

### Arguments

`object1` | a list containing two elements: ct (the expression estimates) and qc (quality scores)
`qcThreshold1` | a numeric threshold corresponding to object1$qc below which values are considered low quality.
`object2` | a list containing two elements: ct (the expression estimates) and qc (quality scores)
`qcThreshold2` | a numeric threshold corresponding to object2$qc below which values are considered low quality.
`label1` | an optional label for plotting on the x-axis
`label2` | an optional label for plotting on the y-axis
`diffThreshold` | feature / sample combinations for which the expression estimates differ by more than this value are returned by the function and highlighted in the plot.
`plotType` | scatterplot or MA-plot

### Value

This function plots the expresison estimates produced by two different methods. Feature / sample combinations for which the expression estimates differ by more than diffThreshold are returned by the function and highlighted in the plot.

### Author(s)

Matthew N. McCall

### Examples

      data(lifetech)
      data(qpcRdefault)
      tmp <- expressionComp(object1=lifetech, qcThreshold1=1.25,
      object2=qpcRdefault,qcThreshold2=0.99,plotType="scatter")

[Package miRcomp version 1.20.0 Index]