#Minimal settings for imputation
java -Xmx1300m -jar pi.jar --impute --pfile ./example.data.txt --gfile hapmap3.r2.ceu.hg19::vcf

#Minimal settings for QC
java -Xmx1g -jar pi.jar --qc --pfile ./example.data.txt --gfile hapmap3.r2.ceu.hg19::vcf

#Minimal settings for meta-analysis. Note: The results will be inflated as the exactly same p-values are combined. 
java -Xmx2g -jar pi.jar --meta --pfile ./example.data.txt,./example.data.txt --gfile hapmap3.r2.ceu.hg19::vcf,hapmap3.r2.ceu.hg19::vcf