qpcR: parKOD – R documentation

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parKOD

Parameters that can be changed to tweak the kinetic outlier methods

Description

A control function with different list items that change the performance of the different (kinetic) outlier functions as defined in KOD.

Usage

parKOD(eff = c("sliwin", "sigfit", "expfit"), train = TRUE, 
       alpha = 0.05, cp.crit = 10, cut = c(-6, 2))

Arguments

`eff`	uni1. The efficiency method to be used. Either `sliwin`, `sigfit` or `expfit`.
`train`	uni1. If `TRUE`, the sample's efficiency is NOT included in the calculation of the average efficiency (default), if `FALSE` it is.
`cp.crit`	uni2. The cycle difference between first and second derivative maxima, default is 10.
`cut`	multi1. A 2-element vector defining the lower and upper border from the first derivative maximum from where to cut the complete curve.
`alpha`	the p-value cutoff value for all implemented statistical tests.

Details

For more details on the function of the parameters within the different kinetic and sigmoidal outlier methods, see KOD.

Value

If called, returns a list with the parameters as items.

Author(s)

Andrej-Nikolai Spiess

Examples

## Multivariate outliers,
## adjusting the 'cut' parameter.
ml1 <- modlist(reps, 1, 2:5, model = l5)
res1 <- KOD(ml1, method = "multi1", par = parKOD(cut = c(-5, 2)))

qpcR

Modelling and Analysis of Real-Time PCR Data

v1.4-1

GPL (>= 2)

Authors

Andrej-Nikolai Spiess <a.spiess@uke.uni-hamburg.de>

Initial release

2018-05-29