in the HRC reference. Furthermore, strand-ambiguous A/T and C/G SNPs were removed if their MAF was >0.4. In the case that A/T and C/G SNPs showed a MAF < 0.4, allele frequencies were compared to frequencies in the HRC reference. If an allele frequency match was found, that is, minor alleles were the same in the summary statistics and the HRC reference, the same strand orientation was assumed. If an allele mismatch was found, that is, the allele had a frequency > 0.5 in the HRC reference, it was assumed that alleles were reported on different strands, and alleles were flipped subsequently. Marker names were uniformly switched to those present in the HRC reference. If a variant did not overlap with the variants in the HRC reference, it was removed.
