GWAS.SampleData

Sample GWAS Dataset with 400 SNPs from Chromosome 1 and 6 (200 SNPs each).

datasets

A multiple testing procedure for testing several groups of
hypotheses is implemented. Linear dependency among the hypotheses
within the same group is modeled by using hidden Markov Models.
It is noted that a smaller p value does not necessarily imply
more significance due to the dependency. A typical application is
to analyze genome wide association studies datasets, where SNPs
from the same chromosome are treated as a group and exhibit
strong linear genomic dependency. See Wei Z, Sun W, Wang K,
Hakonarson H (2009) <doi:10.1093/bioinformatics/btp476> for more details.

Zhi Wei

PLIS

Multiplicity Control using Pooled LIS Statistic

GWAS.SampleData function

A data frame with 400 observations on the following 6 variables.<dl>
 <dt><code>CHR</code></dt>
<dd>Chromosome ID</dd> <dt><code>SNP</code></dt>
<dd>rs Id</dd> <dt><code>BP</code></dt>
<dd>Phisical Position</dd> <dt><code>OR</code></dt>
<dd>Odds Ratio</dd> <dt><code>CHISQ</code></dt>
<dd>1 d.f. Chi Square test Statistic</dd> <dt><code>P</code></dt>
<dd>P value of 1 d.f. Chi Square test Statistic</dd> 
</dl>

Format

Sample GWAS Dataset — GWAS.SampleData

A data frame with 400 observations on the following 6 variables.<dl>
 <dt><code>CHR</code></dt>
<dd>Chromosome ID</dd>

 <dt><code>SNP</code></dt>
<dd>rs Id</dd>

 <dt><code>BP</code></dt>
<dd>Phisical Position</dd>

 <dt><code>OR</code></dt>
<dd>Odds Ratio</dd>

 <dt><code>CHISQ</code></dt>
<dd>1 d.f. Chi Square test Statistic</dd>

 <dt><code>P</code></dt>
<dd>P value of 1 d.f. Chi Square test Statistic</dd>

 
</dl>

GWAS.SampleData: Sample GWAS Dataset

Description

Usage

Arguments

Format

Details

References

Examples