get_top_results_clumped: Clump SNPs from a mash object based on -log10BF
In Alice-MacQueen/snpdiver: Explore SNP Effects on Multiple Phenotypes in Diversity Panels
View source: R/mash-evaluation.R
Description
Clump SNPs from a mash object based on -log10BF
Usage
1
get_top_results_clumped(m, snp, thr.r2)
Arguments
m
A mash object (outputted by mash).
snp
A bigSNP object, produced by the bigsnpr package. Here,
the WAMI SNP information.
thr.r2
Value between 0 and 1. Threshold of r2 measure of linkage
disequilibrium. Markers in higher LD than this will be subset using clumping.
Alice-MacQueen/snpdiver documentation built on Dec. 17, 2021, 8:41 a.m.
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View source: R/mash-evaluation.R
Description
Clump SNPs from a mash object based on -log10BF
Usage
1 | get_top_results_clumped(m, snp, thr.r2)
|
Arguments
m |
A mash object (outputted by mash). |
snp |
A bigSNP object, produced by the bigsnpr package. Here, the WAMI SNP information. |
thr.r2 |
Value between 0 and 1. Threshold of r2 measure of linkage disequilibrium. Markers in higher LD than this will be subset using clumping. |
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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