Revised VCF files from ADNI whole genomes re-aligned and re-called using Broad best practices (BWA and GATK-haplotype caller) are now available from the Download -> Genetic Data section of the ADNI repository.  These files contain the ADNI participant ID rather than the sample ID.  The previous version that contained sample ID have been removed.

The datasets are named “ADNI WGS Data – GATK SNV+Indel call chr# of 23“.  For technical questions about the production of the VCF files, please contact Sheila Sutti at ssutti@genetics.med.harvard.edu.