whecrane

Hi Patrick, Thank you for your promptly reply. That's helpful. I will use some other summary statistics to have a try. By the way, if I just have Pvale and...

Hi Patrick, Thank you for taking the time to answer questions , thank you. To your health. Best wishes, Crane

Hi Patrick, I used the ldsc to run the summary statistics, but the Mean chi^2 is bigger than which in the mtag, so it is 0.941 in mtag but 1.134...

Yes, the mean chi2 is different between the mtag and the ldsc .The mtag is lower than ldsc | | 王鹤 | | 邮箱：[email protected] | On 04/08/2020 10:25, paturley wrote:...

I'm sorry I didn't explain the problem, these are my log files: [AD_test_ldsc.log](https://github.com/omeed-maghzian/mtag/files/4455414/AD_test_ldsc.log) [PA_disease_mtag.log](https://github.com/omeed-maghzian/mtag/files/4455416/PA_disease_mtag.log) [Parkinson_test_ldsc.log](https://github.com/omeed-maghzian/mtag/files/4455418/Parkinson_test_ldsc.log)

Thanks a lot. I will follow your advice to have a try. Best wishes, Crane

Hi Paturley, Thank you very much for your reply, it helped me a lot. Have a nice day! Best wishes, Crane

Dear Paturley, I downloaded some GWAS summary statistics, which have Neff but not have the column of freq, can I use the formula Neff=1/( 2p(1-p)*(SE^2) ),(p is the MAF) to...

Hi Paturley, Thank you very much. I will follow your advice and have a try. Best wishes, Crane