VIMCFX96_meltcurve

<p>Data set of a melting curve using the Bio-Rad CFX96 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

CFX96

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

VIMCFX96_meltcurve function

<p>A data frame with 81 observations on the following 97 variables. The first 
  column ("Temperature") contains the temperature and consecutive columns 
  contain the replicates ("A1" to "H12").</p>

Format

Melting Curve Measured with the Bio-Rad CFX96 — VIMCFX96_meltcurve

Melting Curve Measured with the Bio-Rad CFX96

VIMCFX96_meltcurve: Melting Curve Measured with the Bio-Rad CFX96

Description

Usage

Arguments

Format

References

Examples