groupMatSingle

Group the genotype or haplotype of a half-sib family into partitions using opposing homozygotes.

matrix

group

Identification of recombination events, haplotype reconstruction, sire imputation and pedigree reconstruction using half-sib family SNP data.

Mohammad Ferdosi

hsphase

Phasing, Pedigree Reconstruction, Sire Imputation and
Recombination Events Identification of Half-sib Families Using
SNP Data

Cedric Gondro

groupMatSingle function

<dl> <dt>haplotype</dt>
<dd><code>matrix</code>. Haplotypes (two rows per individual) or genotypes (one row per individual) depending on <code>input</code>.</dd> <dt>windowsSize</dt>
<dd><code>integer</code>. Partition size.</dd> <dt>cpus</dt>
<dd><code>integer</code>. Number of CPU threads.</dd> <dt>input</dt>
<dd><code>character</code>. Either <code>"haplotype"</code> or <code>"genotype"</code>.</dd> <dt>oh</dt>
<dd><code>integer</code>. Threshold for opposing homozygotes used for grouping (increase if genotyping errors exist).</dd></dl>

Arguments

Grouping a Half-sib Family — groupMatSingle

<dl>

 <dt>haplotype</dt>
<dd><code>matrix</code>. Haplotypes (two rows per individual) or genotypes (one row per individual) depending on <code>input</code>.</dd>

 <dt>windowsSize</dt>
<dd><code>integer</code>. Partition size.</dd>

 <dt>cpus</dt>
<dd><code>integer</code>. Number of CPU threads.</dd>

 <dt>input</dt>
<dd><code>character</code>. Either <code>"haplotype"</code> or <code>"genotype"</code>.</dd>

 <dt>oh</dt>
<dd><code>integer</code>. Threshold for opposing homozygotes used for grouping (increase if genotyping errors exist).</dd>

</dl>

groupMatSingle: Grouping a Half-sib Family

Description

Usage

Value

Arguments

See Also

Examples