cutoff.plot {MLDA}R Documentation

Plot of CR against IR

Description

A function to generate a plot of CR against IR. This plot helps users to determine the optimal IR and CR of dye-swapped/duplicated arrays.

Usage

cutoff.plot(mlda.data, cutoff.obj, IR = 0.01, CR = 1.4)

Arguments

mlda.data A dataset object from mlda.data()
cutoff.obj An object from cutoff()
IR Inconsistency rate for dye-swapped/duplicated arrays
CR Consistency rate for dye-swapped/duplicated arrays

Details

Empirically, IR is about 0.01 and CR is about 1.4 on hcgi12k array. But we observed higher IR and lower CR on another CpG island array using DMH. This is mainly resulted from the large variance introduced by dye-swap design. This function can visualise the IRs and CRs on dye-swapped/duplicated arrays and help users to select the optimal IR and CR cut-offs.

Value

No value returned

Author(s)

Wei Dai w.dai@imperial.ac.uk

See Also

cutoff A function to calculate the IRs and CRs at various thresholds
MLDA Examples are included


[Package MLDA version 1.0-1 Index]