midpoint: Calculation of the 'midpoint' region

In qpcR: Modelling and Analysis of Real-Time PCR Data

Description

Calculates the exponential region midpoint using the algorithm described in Peirson et al. (2003).

Usage

midpoint(object, noise.cyc = 1:5)

Arguments

object	a fitted object of class 'pcrfit'.
noise.cyc	the cycles defining the background noise.

Details

The 'midpoint' region is calculated by

F_{noise} \cdot √{\frac{F_{max}}{F_{noise}}}

with F_{noise} = the standard deviation of the background cycles and F_{max} = the maximal fluorescence.

Value

A list with the following components:

f.mp	the 'midpoint' fluorescence.
cyc.mp	the 'midpoint' cycle, as predicted from f.mp.

Author(s)

Andrej-Nikolai Spiess

References

Experimental validation of novel and conventional approaches to quantitative real-time PCR data analysis.
Peirson SN, Butler JN & Foster RG.
Nucleic Acids Research (2003), 31: e73.

Examples

m1 <- pcrfit(reps, 1, 2, l5)
mp <- midpoint(m1) 
plot(m1)
abline(h = mp$f.mp, col = 2)
abline(v = mp$mp, col = 2)  

Example output

Loading required package: MASS
Loading required package: minpack.lm
Loading required package: rgl
Loading required package: robustbase
Loading required package: Matrix
Warning messages:
1: In rgl.init(initValue, onlyNULL) : RGL: unable to open X11 display
2: 'rgl.init' failed, running with 'rgl.useNULL = TRUE'. 
[1] "pcrfit" "nls"   

qpcR documentation built on May 2, 2019, 5:17 a.m.