calculateOverlap_gui {strvalidator}

Calculate Bins Overlap

Description

GUI wrapper for the calculateOverlap function.

Usage

calculateOverlap_gui(
  env = parent.frame(),
  savegui = NULL,
  debug = TRUE,
  parent = NULL
)

Arguments

env

environment in which to search for data frames and save result.

savegui

logical indicating if GUI settings should be saved in the environment.

debug

logical indicating printing debug information.

parent

widget to get focus when finished.

Details

By analysis of the bins overlap between dye channels a measure of the risk for spectral pull-up artefacts can be obtain. The default result is a matrix with the total bins overlap in number of base pairs. If an allele frequency database is provided the overlap at each bin is multiplied with the frequency of the corresponding allele. If no frequence exist for that allele a frequency of 5/2N will be used. X and Y alleles is given the frequency 1. A scoring matrix can be supplied to reduce the effect by spectral distance, meaning that overlap with the neighboring dye can be counted in full (100 while a non neighbor dye get its overlap reduced (to e.g. 10

Value

TRUE

See Also

calculateOverlap