anovaplate {OLIN} | R Documentation |

## One-factorial ANOVA assessing pin-dependent bias

### Description

This function performs an one-factorial analysis of variance assessing microtiter plate-dependent bias
for a single array

### Usage

anovaplate(obj,index)

### Arguments

`obj` |
object of class “marrayRaw” or “marrayNorm” |

`index` |
index of array to be tested |

### Details

The function `anovapin`

performs a one-factorial ANOVA for objects of class “marrayRaw” or
“marrayNorm”. The predictor variable is the corresponding plate index as stored in the `maPlate`

slot of `obj`

;
the response variable is the logged fold-change `M=(log2(Ch2)-log2(Ch1))`

.
The null hypothesis is equal `mean(M)`

of groups of spots derived from the same microtiter plate i.e.
a spot's M does not dependent on the plate of origin.
The model formula used is *M ~ (plate.index - 1)* (without an intercept term).

### Value

The return value is a list of summary statistics of the fitted model as produced by `summary.lm`

.
For example, the squared multiple correlation coefficient *R-square* equals the proportion
of the variation of `M`

that can be explained by the variation of plate index (based on the chosen
ANOVA model.)

### Author(s)

Matthias E. Futschik (http://itb.biologie.hu-berlin.de/~futschik)

### See Also

`anova`

, `summary.lm`

### Examples

# CHECK RAW DATA FOR INTENSITY-DEPENDENT BIAS
data(sw)
print(anovapin(sw,index=1))
# CHECK DATA NORMALISED BY OLIN FOR INTENSITY-DEPENDENT BIAS
data(sw.olin)
print(anovapin(sw.olin,index=1))

[Package

*OLIN* version 1.3.2

Index]