extractNormPeaks: extractNormPeaks

Description Usage Arguments Value Author(s) References See Also Examples

View source: R/LazyMLVA.R

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

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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

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