prune_tags: Hierarchical pruning of genotype matrix
In simisc/cojam: Multi-variant colocalisation with summary genetic association data
Description
Usage
Arguments
Value
Description
Find SNPs that "tag" groups of correlated SNPs by cutting a hierarchical
clustering tree at the specified threshold.
Usage
1
prune_tags(genotypes_1, genotypes_2 = NULL, threshold = 0.9)
Arguments
genotypes_1
Genotype matrix, with SNP identifiers as column names.
genotypes_2
Optional second genotype matrix, useful to jointly select
tag SNPs for cojam.
threshold
Correlation (height) at which to cut the hierarchical
clustering tree.
Value
Character vector of tag SNP identifiers.
simisc/cojam documentation built on Dec. 31, 2020, 7:26 a.m.
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Description Usage Arguments Value
Description
Find SNPs that "tag" groups of correlated SNPs by cutting a hierarchical clustering tree at the specified threshold.
Usage
1 | prune_tags(genotypes_1, genotypes_2 = NULL, threshold = 0.9)
|
Arguments
genotypes_1 |
Genotype matrix, with SNP identifiers as column names. |
genotypes_2 |
Optional second genotype matrix, useful to jointly select
tag SNPs for |
threshold |
Correlation (height) at which to cut the hierarchical clustering tree. |
Value
Character vector of tag SNP identifiers.
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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