calculatePopAlleleFreq: Calculate Allele Frequencies for SNPs from Genotype Data
In bahlolab/isoRelate: Identity-by-Descent Inference of Haploid Recombining Organisms
Description
calculatePopAlleleFreq calculates reference allele frequencies for each SNP given genotype data.
Usage
1
calculatePopAlleleFreq(genotypes, moi)
Arguments
genotypes
An integer matrix of genotype data of the form -1, 0, 1 and 2 representing missing genotypes, homozygous reference,
heterozygous and homozygous alternative respectively. Each column of genotypes represents a unique isolate and each row of genotypes
represents a unique SNP.
moi
An integer vector of multiplicity of infection (MOI) estimates for each isoalte. Isolate MOI estimates should be ordered such that value n of
moi corresponds to column n of genotypes.
bahlolab/isoRelate documentation built on May 11, 2019, 5:25 p.m.
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Description
calculatePopAlleleFreq calculates reference allele frequencies for each SNP given genotype data.
Usage
1 | calculatePopAlleleFreq(genotypes, moi)
|
Arguments
genotypes |
An integer matrix of genotype data of the form -1, 0, 1 and 2 representing missing genotypes, homozygous reference,
heterozygous and homozygous alternative respectively. Each column of |
moi |
An integer vector of multiplicity of infection (MOI) estimates for each isoalte. Isolate MOI estimates should be ordered such that value |
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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