pcs.RdThe data frame contains two principal components (PCs). In this simulation example, we focus on 10 sex-stratified continental African populations, excluding the ACB and ASW populations.
To derive the axes of genetic variation, we used a subset of genetic variants with minor allele frequency (MAF) >5\ These variants were separated by 1Mb in the genome. For each reference panel, we calculated the matrix of pairwise Euclidean distances between the populations using the selected genetic variants. The two axes of genetic variation were derived through the multi-dimensional scaling of the distance matrix in the corresponding reference panel.
pcsAn object of class data.frame with 10 rows and 2 columns.
5 populations of African ancestry were collected from Phase 3 of 1000 Genomes https://ctg.cncr.nl/software/MAGMA/ref_data/.