slope: Function to calculate the amplification efficiency

In slepape/EasyqpcR: EasyqpcR for low-throughput real-time quantitative PCR data analysis

Description

This function calculates the amplification efficiency from classical qPCR dilution experiment using the Cq values. The Cq values are plotted against the logarithmized concentration (or dilution) values, a linear regression line is fit and the efficiency calculated by E = 10^-1/slope.

Usage

slope(data, q, r, na.rm = FALSE)

Arguments

data	data.frame containing row datas (genes in columns, samples in rows, Cq values).
q	numeric, cDNA dilution values.
r	numeric, number of qPCR replicates.
na.rm	logical, indicating whether NA values should be stripped before the computation proceeds.

Value

Efficiency	Primer amplification efficiency.
Slope	Slope of the dilution curve.
Intercept	Intercept of the dilution curve

Author(s)

Sylvain Le pape <[e-mail]>

See Also

You can also see the qpcR package with the calib and calib2 functions.

Examples

data(Efficiency_calculation)

slope(data = Efficiency_calculation, q=c(1000, 100 ,10, 1, 0.1), r=3, na.rm=TRUE)

slepape/EasyqpcR documentation built on May 31, 2019, 12:13 p.m.