Alva Rani James

@annajbott Thanks for sharing the steps. Unfortunately, none of these steps worked for me. After running all config add, I then tried this one liner to install fastp: `conda create...

@KimBioInfoStudio Sorry for the delayed response, I have tried the step 1, step 2, step 3. Those steps did not work for me from step 1 onwards. For example, this...

So for example. The best PRS according to the tutorial is 0.3 and what I have is 0.5 ` prs.result[which.max(prs.result$R2),] Threshold R2 P BETA SE 7 0.5 0.1634566 9.256151e-26 55830.85...

Ok, thanks a lot for the update and for double-checking this. I appreciate your time and help. I can re-run once again. And make sure steps and same. I have...

Hi Sam, I could now validate my output with what is documented. Thanks for your time and patience. I have a question. Do the base and target datasets are some...

I am confused then in our case we do not have a different base and target datasets. The 1 base dataset is Gwas output from plink on the same cohort....

Thanks a lot for the paper. I have another question, is it possible to have a gene-based polygenic score than on each variant within each patient?

Yes what I mean is we need a score for each gene. A weighted score. Currently from both tools we have score for each patients in each variants/SNP. If we...

Thanks again for your suggestions and time. Using for pathways enrichment meaning using those genes with a specific threshold for pathway enrichment analysis gives us more meaningful results? Is that...

Thanks a lot. Makes sense to me Thanks again for your time and Patience. On Mon 4. Oct 2021 at 22:50, Shing Wan Choi ***@***.***> wrote: > Use pathway (collection...