-
Dear Dr. Prive
Thanks for your great tool LDpred2!
I am learning to use it to calculate PRS, but encountered some questions. Can you help me out ? Thanks!
1, on your webpage https://privefl.g…
-
**Describe the bug**
The versions of the `ldpred2.R` and `createBackingFile.R` scripts from the main branch to a MoBa sample/height phenotype, the predicted scores do not correlate with the phenotype…
-
Hi Sam @choishingwan ,
When we compare LDpred and Lassosum, we see that SNP's matching is used in the LDpred, but it is not used in the Lassosum. Would you please explain if there is any possible r…
-
Hello Dr. Privé,
I am trying to generate polygenic risk scores with LDpred2's automatic model and have encountered some problems. I have got LDpred2 running without error and produced a set of resu…
-
Dear Florian,
Our group is using LDpred2 for the development of polygenic scores. After obtaining lower than expected results, we have tried to simulate the results of the paper with the summary s…
-
Dear Tian,
First,Thank you for your valuable tool for PRS analysis. It really helps me a lot.
I'm new to the genetics. May I ask the key follow-up parts, such as how the results built using your…
-
Hey Florian,
I am a new PhD student and my lab previously used PRSice2 which I would prefer not to continue using considering LDpred2 is such a better method. I was able to follow your tutorial us…
-
Hi Yakir
I'm asking some questions about data preprocessing here as our messages may be helpful to those who have similar problems in data preprocessing.
My first question is should…
-
I am getting an error and wanted to check with you if what I am observing is an error or intentional design. When all the phenotypes for the samples in my fam file are NA, I get "No phenotype presente…
-
I am using the 100,000 genomes project aggregated dataset which is an aggregated plink bed file of 78,000 people chunked into 1500 segments/files spanning the entire genome and summary stats from the …