bin_by_num {genomatic}R Documentation

Graphical output of bin quality

Description

Graphical output of bin quality. Creates plots of bin width as a function number of peaks in the bin.

Usage

bin_by_num(locus, loci, ident = 0)

Arguments

locus allele characteristics produced ‘allele\_char’
loci a data.frame of locus names
ident flag to enable interactive identification of points when set to 1. Default is no.

Details

Graphical output of bin quality. Creates plots of bin width as a function number of peaks in the bin. A heavy line is plotted at one base pair and thinner lines are plotted at 1.1, 1.2, 1.3, and 1.4 base pairs. It seems intuitive that a bin should not range more than a base pair, however experience suggests that bins that range more than a single base pair are frequently acceptable. This could be due to error in the size calling (how close the peak is to a size standard), among capillary error (capillary quality may induce error), or other unforeseen issues.

Value

Returns a NULL.

Author(s)

Brian J. Knaus bknaus@fs.fed.us http://brianknaus.com

References

Knaus, B.J. In prep. Genomatic: an R package for DNA fragment analysis project management.


[Package genomatic version 0.0-7 Index]