PGC2 Schizophrenia GWAS Ancestry Proportion — PGC2_SCZ_ANC

Estimated ancestry proportions of the PGC SCZ2 cohort over the 33KG reference panel, in the shape every mixture analysis expects for pop_wgt_df: column 1 the population abbreviation, column 2 the mixing proportion.

Usage

data(PGC2_SCZ_ANC_Prop)

Format

A data.frame with 21 rows and 2 columns:

pop: 33KG population abbreviation.
wgt: Mixing proportion; non-negative, summing to 1.

Details

Estimated with afmix from the study allele frequencies in data/PGC2_Chr22_ilmn1M_AF1.txt; 21 of the panel's 29 populations carry a positive weight. The proportions are rescaled to sum to 1, which the mixture covariance assumes; afmix() itself does not rescale its output, so the values as first published summed to 1.061. Rescaling changes only the scale, not any population's share relative to the others. See data-raw/make_PGC2_SCZ_ANC_Prop.R.

References

Schizophrenia Working Group of Psychiatric Genomics Consortium (2014). Biological insights from 108 schizophrenia associated genetic loci. Nature Link to article

Examples

if (FALSE) { # \dontrun{
data(PGC2_SCZ_ANC_Prop)
str(PGC2_SCZ_ANC_Prop)
} # }