extractNormPeaks: extractNormPeaks

In LazyMLVA: LazyMLVA

Description

This function just combines extraction of peaks with seqinr::peakabif and normalization with normPeaks. It just makes the creation of normalized peaks a bit easier.

Usage

extractNormPeaks(abifdata, 
                  chanel = 5, 
                  npeak = 15, 
                  tmin = 2.3, 
                  thres = 0.5, 
                  fig = FALSE, 
                  ...)

Arguments

abifdata	the result returned by seqinr::read.abif representing the ABIF file
chanel	the channel number of the size standard
npeak	number of peaks to extract
tmin	scaled starting time for the time axis (see seqinr::peakabif)
thres	scaled threshold value (see seqinr::peakabif)
fig	logical: should localized peaks be plotted (see seqinr::peakabif)
...	arguments passed to seqinr::peakabif

Value

a numeric variable containing npeak - 2 values

Author(s)

Johannes Elias

References

package seqinr by Charif, D. and Lobry, J.R. (2007)

See Also

seqinr::peakabif, normPeaks

Examples

extractNormPeaks(r_abif)

LazyMLVA documentation built on May 2, 2019, 5:33 p.m.