VIMiQ5_melt

<p>Data set of a melting curve using the Bio-Rad iQ5 thermo cycler. The 
samples of Vimentin were measured in the CFX96 as replicates according to 
Roediger et al. (2013). The quantification was performed during the gradient 
from 55 to 95 degrees Celsius with a resolution of 0.5 degrees Celsius per step.</p>

datasets

melt

A collection of functions to pre-process amplification curve data from polymerase chain reaction (PCR) or isothermal amplification reactions. Contains functions to normalize and baseline amplification curves, to detect both the start and end of an amplification reaction, several smoothers (e.g., LOWESS, moving average, cubic splines, Savitzky-Golay), a function to detect false positive amplification reactions and a function to determine the amplification efficiency. Quantification point (Cq) methods include the first (FDM) and second approximate derivative maximum (SDM) methods (calculated by a 5-point-stencil) and the cycle threshold method. Data sets of experimental nucleic acid amplification systems ('VideoScan HCU', capillary convective PCR (ccPCR)) and commercial systems are included. Amplification curves were generated by helicase dependent amplification (HDA), ccPCR or PCR. As detection system intercalating dyes (EvaGreen, SYBR Green) and hydrolysis probes (TaqMan) were used. For more information see: Roediger et al. (2015) <doi:10.1093/bioinformatics/btv205>.

Stefan Roediger

chipPCR

Toolkit of Helper Functions to Pre-Process Amplification Data

Michal Burdukiewicz

Konstantin A. Blagodatskikh

Andrej-Nikolai Spiess

VIMiQ5_melt function

<p>A data frame with 81 observations on the following 97 variables. The 
first column ("T") contains the temperature and consecutive columns contain 
the replicates ("A01" to "H12").</p>

Format

Melting Curve Measured with the Bio-Rad iQ5 — VIMiQ5_melt

Melting Curve Measured with the Bio-Rad iQ5

VIMiQ5_melt: Melting Curve Measured with the Bio-Rad iQ5

Description

Usage

Arguments

Format

References

Examples