I have used two different methods to do a height GWAS, and would like to know which method has more statistical power. I've searched over the internet and found that most software products are either
- not available anymore (obsolete links) or
- only available online (implying manual input for millions of snps) or
- irrelevant (e.g. to help calculate sample size for a to-be-planned GWAS).
The only package seems to be appropriate is GWAS power at https://github.com/kaustubhad/gwas-power, but I have a question regarding which p-value to use (https://github.com/kaustubhad/gwas-power/issues/3) and not sure when the question will be answered.
The above being said, I am wondering how people are calculating GWAS power these days.
A related question is what metrics to use to tell which GWAS method is better than the other besides power. Suggestions would be appreciated.
Thanks much in advance!