European LD files for GhostKnockoffGWAS

This contains pre-processed LD files (Sigma matrix, S matrix, ...etc) computed on the EUR cohort of Pan-UKB LD data. It is intended to be used as an input to the GhostKnockoffGWAS pipeline.

• We restricted our attention to the EUR panel 
• We filtered the original HailBlockMatrix LD panel to genotypes that are typed (i.e. imputed SNPs were removed)
• Coordinates in both hg19 and hg38 are available. Conversion from hg19 to hg38 were achieved by the R package liftOver. 
• Downloading and processing of the original HailBlockMatrix formatted data is accomplished by the EasyLD.jl software: https://biona001.github.io/EasyLD.jl
• Knockoff optimization were carried out by the Knockoffs.jl julia package: https://github.com/biona001/Knockoffs.jl
• The result (i.e. files available in this site) is saved in .csv and .h5 formatted files for easier access, which is directly readable by GhostKnockoffGWAS.