expressionComp: Compare expression estimates between two methods
In miRcomp: Tools to assess and compare miRNA expression estimatation methods

Description Usage Arguments Value Author(s) Examples

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.

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

`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

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.

Matthew N. McCall

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