refMFI-class: Class '"refMFI"'

In chipPCR: Toolkit of Helper Functions to Pre-Process Amplification Data

Description

An S4 class containing the output MFIaggr function. refMFI means referenced Mean Fluorescence Intensity (Roediger et al. 2013)

Value

A class for a matrix of amplifications curve data from a qPCR experiment.

Slots

.Data:

"matrix" containing the "Cycle", "Location" (mean, median), "Deviation" (standard deviation, median absolute deviation), "Coefficient of Variance" (CV, RSD) sequential in the columns.

density:

"density" containing results of the density analysis.

qqnorm.data:

"data.frame" containing data required for Quantile-Quantile plots.

stats:

"numeric" vector containing general statistics.

Methods

qqnorm

signature(y = "refMFI"): plots a normal QQ plot. See qqnorm

qqline

signature(y = "refMFI"): adds a line to QQ plot. See qqline

plot

signature(x = "refMFI"): plots the object. See plot.refMFI

show

signature(object = "refMFI"): prints only .Data slot of the object.

summary

signature(object = "refMFI"): prints general statistics and allows easy access to stats slot. See summary.refMFI

Author(s)

Stefan Roediger, Michal Burdukiewicz

References

Roediger S, Boehm A, Schimke I. Surface Melting Curve Analysis with R. The R Journal 2013;5:37–53.

See Also

MFIaggr, plot.refMFI, summary.refMFI

Examples

data(VIMCFX96_60)

res <- MFIaggr(VIMCFX96_60)
#summarize analysis
summary(res)
#plot results of the analysis
plot(res)
#plot a QQ plot
qqnorm(res)
#add QQ line
qqline(res)

chipPCR documentation built on March 5, 2021, 9:06 a.m.