The high-quality genotyping data produced by the QC/ QA process will undoubtedly contribute to SNP imputation accuracy, which will be essential for successful cross-study integration. The Imputation Working Group is leading GENEVA efforts to impute all data in a uniform manner despite the differences in study designs, genotyping platforms and population structures. Choice of imputation software, HapMap build and population reference panel, available computational resources, and methods for incorporating quality scores and other metrics of accuracy and efficiency are among the many factors to be addressed.
