findpeaks

tries to be smart about detecting the interesting subregion to finemap/coloc.

Performs the colocalisation tests described in
Giambartolomei et al (2013) <doi:10.1371/journal.pgen.1004383>,
Wallace (2020) <doi:10.1371/journal.pgen.1008720>,
Wallace (2021) <doi:10.1371/journal.pgen.1009440>.

Chris Wallace

coloc

Colocalisation Tests of Two Genetic Traits

Claudia Giambartolomei

Vincent Plagnol

findpeaks function

<dl><dt>d</dt>
<dd>a coloc dataset</dd>
<dt>maxz</dt>
<dd>keep all snps between the leftmost and rightmost snp with |z| &gt;
maxz</dd>
<dt>maxr2</dt>
<dd>expand window to keep all snps between snps with r2 &gt; maxr2
with the left/rightmost snps defined by the maxz threshold</dd>
<dt>do.plot</dt>
<dd>if TRUE, plot dataset + boundaries</dd></dl>

Arguments

Author

trim a dataset to only peak(s) — findpeaks

<dl>

<dt>d</dt>
<dd>a coloc dataset</dd>


<dt>maxz</dt>
<dd>keep all snps between the leftmost and rightmost snp with |z| &gt;
maxz</dd>


<dt>maxr2</dt>
<dd>expand window to keep all snps between snps with r2 &gt; maxr2
with the left/rightmost snps defined by the maxz threshold</dd>


<dt>do.plot</dt>
<dd>if TRUE, plot dataset + boundaries</dd>

</dl>

findpeaks: trim a dataset to only peak(s)

Description

Usage

Value

Arguments

Author

Details

See Also