plot.refMFI

plot,refMFI-method

plot,refMFI,ANY-method

plot,refMFI,refMFI-method


is a <code>refMFI</code> object. refMFI means referenced Mean Fluorescence Intensity (Roediger et al. 2013)



optionally an additional <code>refMFI</code> object.


 If <code>CV</code> is true the coefficient of variation (RSD, CV) is 
plotted. If set to <code>FALSE</code> the deviation as Standard Deviation or 
Median Absolute Deviation is plotted. 

 is a graphical parameter setting the plot use lines, points 
             or both (see <code><a rd-options="" href="/link/plot?package=chipPCR&version=0.0.8-10" data-mini-rdoc="chipPCR::plot">plot</a></code>). 

type

 is a graphical parameter used to define the symbol used in 
            the plot. 

 <code>length</code> is a graphical parameter used to define the 
              length of the error bar used in the plot. 

length

 <code>col</code> is a graphical parameter used to define the length 
           of the error bar used in the plot. 


Draw quick diagnostic plots of amplification reaction.


hplot

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.

plot.refMFI: Plot `refMFI` objects

Description

Usage

Arguments

Details

References

See Also