pcaSnpFilters | R Documentation |
Base positions for the LCT (2q21), HLA (including MHC), and inversion (8p23, 17q21.31) regions from the GRCh36/hg18, GRCh37/hg19 and GRCh38/hg38 genome genome builds.
pcaSnpFilters.hg18
pcaSnpFilters.hg19
pcaSnpFilters.hg38
A data.frame with the following columns.
chrom
chromsome
start.base
starting base position of region
end.base
ending base position of region
comment
description of the region
These regions result in high SNP-PC
correlation if they are included in Principal Component Analysis
(PCA). The pcaSnpFilters
datasets can be used to filter SNPs prior to running PCA
to avoid correlations.
UCSC genome browser (http://genome.ucsc.edu).
Novembre, John et al. (2008), Genes mirror geography within Europe. Nature, 456: 98-101. doi:10.1038/nature07331
snpCorrelationPlot
, SNPRelate
data(pcaSnpFilters.hg18)
data(pcaSnpFilters.hg19)
data(pcaSnpFilters.hg38)
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