repolarize_sfs: Reverse the polarity (ancestral vs derived) of an SFS.
In andrewparkermorgan/sfsr: Utilities for Manipulating Allele Frequency Spectra
Description
Usage
Arguments
Details
Description
Reverse the polarity (ancestral vs derived) of an SFS.
Usage
1
repolarize_sfs(sfs, ...)
Arguments
sfs
an SFS
...
ignored
Details
It appears that recent versions of the ANGSD software get the polarity of the SFS backwards,
at least in their output. The distinction is not important for simple measures of diversity, but for tests
based on polymorphism vs divergence (McDonald-Kreitman, Hudson-Kreitman-Aguade) it matters.
andrewparkermorgan/sfsr documentation built on May 10, 2019, 11:10 a.m.
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Description Usage Arguments Details
Description
Reverse the polarity (ancestral vs derived) of an SFS.
Usage
1 | repolarize_sfs(sfs, ...)
|
Arguments
sfs |
an SFS |
... |
ignored |
Details
It appears that recent versions of the ANGSD software get the polarity of the SFS backwards,
at least in their output. The distinction is not important for simple measures of diversity, but for tests
based on polymorphism vs divergence (McDonald-Kreitman, Hudson-Kreitman-Aguade) it matters.
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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