data_Genos: An example genotype data set

In j-a-thia/genomalicious: A smorgasbord of R functions for population genomic analyses

An example genotype data set

Description

A long-format data table containing individual genotypes for 4 populations, each with 30 individuals, and 200 biallelic SNP loci. Simulated with FastSimCoal2 (Excoffier et al., 2013).

Usage

data(data_Genos)

Format

A data table with 24000 rows and 11 columns.

Details

• CHROM = The contig ID.

• POS = The SNP position.

• LOCUS = The unique locus ID.

• POP = The population ID.

• SAMPLE = The sample ID: Ind[Pop]_[Number].

• GT = The genotype ID, coded as counts of the alternate allele.

• DP = The total read depth.

• AO = The alternate read counts.

• RO = The reference read counts.

• ALT = The alternate allele.

• REF = The reference allele.

References

Excoffier et al. (2013) Robust demographic inference from genomic SNP data. PLoS Genetics: 9(10), e1003905.

j-a-thia/genomalicious documentation built on Oct. 19, 2024, 7:51 p.m.