MFIerror: Multiple comparison of the temperature dependent variance of...
In michbur/MBmca: Nucleic Acid Melting Curve Analysis

Description Usage Arguments Value Author(s) See Also Examples

View source: R/MFIerror.R

MFIerror is used for a fast multiple comparison of the temperature dependent variance of the refMFI. MFIerror returns an object of the class data.frame with columns “Temperature”, “Location” (Mean, Median), “Deviation” (Standard Deviation, Median Absolute Deviation) and “Coefficient of Variation”.

MFIerror(
  x,
  y,
  CV = FALSE,
  RSD = FALSE,
  rob = FALSE,
  errplot = TRUE,
  type = "p",
  pch = 19,
  length = 0.05,
  col = "black"
)

`x`	is the column of a data frame for the temperature.
`y`	are multiple columns of fluorescence values from a `data.frame` (e.g., [, c(1:n)]).
`CV`	If `CV` is true the coefficient of variation (RSD, CV) is plotted. If set to FLASE the deviation as Standard Deviation or Median Absolute Deviation is plotted.
`RSD`	Setting the option `RSD = TRUE` shows the relative standard deviation (RSD) in percent.
`rob`	Using the option `rob` as TRUE the median and the median absolute deviation (MAD) is plotted instead of the mean and standard deviation.
`errplot`	sets `MFIerror()` to plot the results (default). In the default setting (`CV = FALSE`) the mean with the standard deviations is plotted.
`type`	is a graphical parameter setting the plot use lines, points or both (see `plot`).
`pch`	is a graphical parameter used to define the symbol used in the plot.
`length`	`length` is a graphical parameter used to define the length of the error bar used in the plot.
`col`	`col` is a graphical parameter used to define the color of the error bar used in the plot.

res

returns a data.frame containing the "Temperature", "Location" (mean, median), "Deviation" (standard deviation, median absolute deviation), "Coefficient of Variance" (CV, RSD) sequential in the columns.

Stefan Roediger

mcaSmoother

# First Example
# Temperature dependent variance of the refMFI using standard measures 
# (Mean, Standard Deviation (SD)).
# Use Standard Deviation (SD) in the plot

data(MultiMelt)
MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)])

# Second Example
# Temperature dependent relative variance of the refMFI using robust 
# measures (Median, Median Absolute Deviation (MAD)). The parameter 
# errplot is set to FALSE in order to prevent the plot of the 
# coefficient of variation versus the temperature.

MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)], errplot = FALSE, 
	  RSD = TRUE, rob = TRUE)

# Third Example
# Temperature dependent relative variance of the refMFI using 
# robust measures (Median, Median Absolute Deviation (MAD)).
MFIerror(MultiMelt[, 1], MultiMelt[, c(2L:13)], RSD = TRUE, 
  rob = TRUE)