Hi, How to calculate power when checking association of a single/two SNPs with a quantitative trait? My query is regarding the options of Quantitative TDT and Quantitative Case-Control in genetic power calculator
In Quantitative Case-Control
What is QTL increaser allele frequency?-what does it mean?
Linkage disequilibrium (D-prime)-How to determine D' between marker and QTL in my case?
Case lower threshold
Case upper threshold
Controls lower threshold
Controls upper threshold How to determine case and control lower threshold and upper threshold if one is not certain about the amount of change(though my hypothesis may be that minor allele may be predisposing)
Quantitative TDT QTL increaser allele frequency? Marker M1 allele frequency-Is it MAF? Linkage disequilibrium (D-prime) Case threshold Recombination fraction (theta)- How is it determined?