LCT.haplotypes

LCT.hap

LCT.sample

LCT.snps

These data contain the haplotype matrix <code>LCT.hap</code> (5008 haplotypes) of the 2004 individuals from the 1000 Genomes data for a ~300kb segment containing the Lactase gene. 
 Information about individuals (sex, population and super population) is present in <code>LCT.sample</code>, and information about snps is available in <code>LCT.snps</code>.

Rare variant association tests: burden tests (Bocher et al. 2019 <doi:10.1002/gepi.22210>) and the Sequence Kernel Association Test (Bocher et al. 2021 <doi:10.1038/s41431-020-00792-8>) in the whole genome; and genetic simulations.

Ozvan Bocher

Ravages

Rare Variant Analysis and Genetic Simulations

LCT.haplotypes function

Three data objects are present in <code>LCT.haplotypes</code>:<dl>
 <dt><code>LCT.hap</code></dt>
<dd>A matrix of haplotypes</dd> <dt><code>LCT.sample</code></dt>
<dd>A data frame with information on individuals (sex, population, super.population)</dd> <dt><code>LCT.snps</code></dt>
<dd>A data frame with information on snps (chr, id, dist, pos, A1, A2)</dd> 
</dl>

Format

LCT haplotypes data set — LCT.haplotypes

Three data objects are present in <code>LCT.haplotypes</code>:<dl>
 <dt><code>LCT.hap</code></dt>
<dd>A matrix of haplotypes</dd>

 <dt><code>LCT.sample</code></dt>
<dd>A data frame with information on individuals (sex, population, super.population)</dd>

 <dt><code>LCT.snps</code></dt>
<dd>A data frame with information on snps (chr, id, dist, pos, A1, A2)</dd>

 
</dl>

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LCT.haplotypes: LCT haplotypes data set

Description

Usage

Arguments

Format

References

See Also