kgpe

Sample, pedigree, and population data for 3,202 samples in the expanded 1000 Genomes Project data.

datasets

Metadata about populations and data about samples from the 1000 Genomes Project, including the 2,504 samples sequenced for the Phase 3 release and the expanded collection of 3,202 samples with 602 additional trios. The data is described in Auton et al. (2015) <doi:10.1038/nature15393> and Byrska-Bishop et al. (2022) <doi:10.1016/j.cell.2022.08.004>, and raw data is available at <http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/>. See Turner (2022) <doi:10.48550/arXiv.2210.00539> for more details.

Stephen Turner

1000 Genomes Project Metadata

kgpe function

A tibble with 3202 rows and 11 columns:<dl>
 <dt>fid</dt>
<dd>Family ID</dd> <dt>id</dt>
<dd>Individual ID</dd> <dt>pid</dt>
<dd>Paternal ID</dd> <dt>mid</dt>
<dd>Maternal ID</dd> <dt>sex</dt>
<dd>Sex (1=Male, 2=Female)</dd> <dt>sexf</dt>
<dd>Sex as a factor</dd> <dt>pop</dt>
<dd>Short population code</dd> <dt>reg</dt>
<dd>Short region code</dd> <dt>population</dt>
<dd>Long population description</dd> <dt>region</dt>
<dd>Long region description</dd> <dt>phase3</dt>
<dd>Logical; indicates whether this sample is included in the Phase 3 release data</dd>
</dl>

Format

1000 Genomes Project sample data (Expanded) — kgpe

A tibble with 3202 rows and 11 columns:<dl>
 <dt>fid</dt>
<dd>Family ID</dd>

 <dt>id</dt>
<dd>Individual ID</dd>

 <dt>pid</dt>
<dd>Paternal ID</dd>

 <dt>mid</dt>
<dd>Maternal ID</dd>

 <dt>sex</dt>
<dd>Sex (1=Male, 2=Female)</dd>

 <dt>sexf</dt>
<dd>Sex as a factor</dd>

 <dt>pop</dt>
<dd>Short population code</dd>

 <dt>reg</dt>
<dd>Short region code</dd>

 <dt>population</dt>
<dd>Long population description</dd>

 <dt>region</dt>
<dd>Long region description</dd>

 <dt>phase3</dt>
<dd>Logical; indicates whether this sample is included in the Phase 3 release data</dd>


</dl>

kgpe: 1000 Genomes Project sample data (Expanded)

Description

Usage

Arguments

Format

References