pairwise_fst: compute pairwise Fst using SNPRelate
In eriqande/genoscapeRtools: Tools for building migratory bird genoscapes
Description
This just wraps SNPRelate's function and makes it easy to compute
Fst for all pairwise combinations. Returns a tidy data frame.
Usage
1
pairwise_fst(dat012, sample_groups)
Arguments
dat012
An 012 matrix. Missing data should be -1.
sample_groups
this should be a tibble with a column "sample"
and another column "group". The Fst calculations are done pairwise between
the groups. You probably don't want individuals in sample_groups that are
not in the rownames of dat012. If group is NA for any individuals, they
get silently tossed out.
eriqande/genoscapeRtools documentation built on Dec. 27, 2021, 8:01 a.m.
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Description
This just wraps SNPRelate's function and makes it easy to compute Fst for all pairwise combinations. Returns a tidy data frame.
Usage
1 | pairwise_fst(dat012, sample_groups)
|
Arguments
dat012 |
An 012 matrix. Missing data should be -1. |
sample_groups |
this should be a tibble with a column "sample" and another column "group". The Fst calculations are done pairwise between the groups. You probably don't want individuals in sample_groups that are not in the rownames of dat012. If group is NA for any individuals, they get silently tossed out. |
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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