calcPWP: Calculate pairwise pi between two diploid individuals
In gbradburd/popgenstuff: Handy Functions for PopGen Analysis in R
Description
Usage
Arguments
Details
Value
Description
Calculate pairwise pi between two diploid individuals
Usage
1
calcPWP(ind1, ind2, L)
Arguments
ind1
A genotype vector for a single diploid individual
for which the ith element
gives the frequency of the counted
allele in that individual at the ith locus.
ind2
A genotype vector for a single diploid individual
for which the ith element
gives the frequency of the counted
allele in that individual at the ith locus.
L
The number of loci genotyped in both individuals 1
and 2.
Details
The genotype data should consist of 0,0.5,1
with missing data indicated with NA.
If the genotype vectors ind1 and ind2
consist only of polymorphic loci, and L is the
number of co-genotyped polymorphic loci,
this function will return pairwise pi at
polymorphic sites, which may not be
comparable across datasets.
Value
An estimate of pairwise pi between individuals 1 and 2.
gbradburd/popgenstuff documentation built on Oct. 16, 2021, 12:05 a.m.
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Description Usage Arguments Details Value
Description
Calculate pairwise pi between two diploid individuals
Usage
1 | calcPWP(ind1, ind2, L)
|
Arguments
ind1 |
A genotype vector for a single diploid individual for which the ith element gives the frequency of the counted allele in that individual at the ith locus. |
ind2 |
A genotype vector for a single diploid individual for which the ith element gives the frequency of the counted allele in that individual at the ith locus. |
L |
The number of loci genotyped in both individuals 1 and 2. |
Details
The genotype data should consist of 0,0.5,1
with missing data indicated with NA.
If the genotype vectors ind1 and ind2
consist only of polymorphic loci, and L is the
number of co-genotyped polymorphic loci,
this function will return pairwise pi at
polymorphic sites, which may not be
comparable across datasets.
Value
An estimate of pairwise pi between individuals 1 and 2.
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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