collate_haplotype_variants

This function collates a list of output files from haplotype_variants.

A local haplotyping tool for use in trait association and trait prediction analyses pipelines.
'HaploVar' enables users take single nucleotide polymorphisms (SNPs) (in VCF
format) and a linkage disequilibrium (LD) matrix, calculate local haplotypes and format the
output to be compatible with a wide range of trait association and trait prediction tools.
The local haplotypes are calculated from the LD matrix using a clustering algorithm called
density-based spatial clustering of applications with noise ('DBSCAN') (Ester et al., 1996)
<ISBN: 1577350049>.

Tessa MacNish

HaploVar

Defining Local Haplotype Variants for Use in Trait Association
and Trait Prediction Analyses

Hawlader Al-Mamun

Thomas Bergmann

Mitchell Bestry

Jacob Marsh

David Edwards

collate_haplotype_variants function

<dl><dt>haplotype_variants_list</dt>
<dd>A list of the tables created by the define_haplotypes function.</dd>
<dt>format</dt>
<dd>The format you want the output table to be in. This should be the same number you used when running define_haplotypes.</dd></dl>

Arguments

Collate haplotype_variants Tables — collate_haplotype_variants

<dl>

<dt>haplotype_variants_list</dt>
<dd>A list of the tables created by the define_haplotypes function.</dd>


<dt>format</dt>
<dd>The format you want the output table to be in. This should be the same number you used when running define_haplotypes.</dd>

</dl>

collate_haplotype_variants: Collate haplotype_variants Tables

Description

Usage

Value

Arguments