count.unknowns-methods: Calculate missing nucleotide frequencies
In pievos101/PopGenome: An Efficient Swiss Army Knife for Population Genomic Analyses
count.unknowns-methods R Documentation
Calculate missing nucleotide frequencies
Description
A generic function to calculate the missing nucleotide frequencies.
Usage
## S4 method for signature 'GENOME'
count.unknowns(object)
Arguments
object
An object of class "GENOME"
Value
Returned value is a modified object of class "GENOME"
The slot GENOME.class@missing.freqs for the missing frequencies for the whole region.
The slot GENOME.class@region.stats@missing.freqs for the missing frequencies for each SNP in a given region
Examples
# GENOME.class <- readData("VCF", format="VCF", include.unknown=TRUE)
# GENOME.class@region.stats
# GENOME.class <- count.unknowns(GENOME.class)
# GENOME.class@missing.freqs
# GENOME.class@region.stats@missing.freqs
pievos101/PopGenome documentation built on Feb. 24, 2023, 7:11 a.m.
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| count.unknowns-methods | R Documentation |
Calculate missing nucleotide frequencies
Description
A generic function to calculate the missing nucleotide frequencies.
Usage
## S4 method for signature 'GENOME' count.unknowns(object)
Arguments
object |
An object of class |
Value
Returned value is a modified object of class "GENOME"
The slot GENOME.class@missing.freqs for the missing frequencies for the whole region.
The slot GENOME.class@region.stats@missing.freqs for the missing frequencies for each SNP in a given region
Examples
# GENOME.class <- readData("VCF", format="VCF", include.unknown=TRUE)
# GENOME.class@region.stats
# GENOME.class <- count.unknowns(GENOME.class)
# GENOME.class@missing.freqs
# GENOME.class@region.stats@missing.freqs
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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