Description Usage Arguments Value Author(s) Examples

View source: R/expressionComp.R

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.

1 2 3 4 5 | ```
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

1 2 3 4 | ```
data(lifetech)
data(qpcRdefault)
tmp <- expressionComp(object1=lifetech, qcThreshold1=1.25,
object2=qpcRdefault,qcThreshold2=0.99,plotType="scatter")
``` |

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