lowFreqSubs: Low Frequency Substitutions
In EricArcher/strataG: Summaries and Population Structure Analyses of Genetic Data
lowFreqSubs R Documentation
Low Frequency Substitutions
Description
Check nucleotide sites for low frequency substitutions.
Usage
lowFreqSubs(x, min.freq = 3, motif.length = 10, simplify = TRUE)
Arguments
x
a DNAbin object.
min.freq
minimum frequency of base to be flagged.
motif.length
length of motif around low frequency base to output.
simplify
if there is a single locus, return result in a simplified
form? If FALSE a list will be returned wth one element per locus.
Value
data.frame listing id, site number, and motif around low frequency
base call.
Author(s)
Eric Archer eric.archer@noaa.gov
Examples
data(dolph.haps)
lowFreqSubs(dolph.haps)
EricArcher/strataG documentation built on Feb. 12, 2023, 4:11 a.m.
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| lowFreqSubs | R Documentation |
Low Frequency Substitutions
Description
Check nucleotide sites for low frequency substitutions.
Usage
lowFreqSubs(x, min.freq = 3, motif.length = 10, simplify = TRUE)
Arguments
x |
a |
min.freq |
minimum frequency of base to be flagged. |
motif.length |
length of motif around low frequency base to output. |
simplify |
if there is a single locus, return result in a simplified
form? If |
Value
data.frame listing id, site number, and motif around low frequency base call.
Author(s)
Eric Archer eric.archer@noaa.gov
Examples
data(dolph.haps) lowFreqSubs(dolph.haps)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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