cutoff.plot {MLDA} | R Documentation |
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.
cutoff.plot(mlda.data, cutoff.obj, IR = 0.01, CR = 1.4)
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 |
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.
No value returned
Wei Dai w.dai@imperial.ac.uk
cutoff
A function to calculate the IRs and CRs at various thresholds
MLDA
Examples are included