Chris Wallace

Sorry, yes, my mistake (long day!) I'll take a look this week ⁣http://chr1swallace.github.io​ On 4 May 2021, 19:00, at 19:00, "Isaac García" ***@***.***> wrote: >Sorry, I think I'm confused again...

I'm afraid I can't reproduce. Could you please give me an example dataset where this happens? -- https://chr1swallace.github.io ________________________________ From: prplmnky ***@***.***> Sent: Friday, April 5, 2024 11:37 AM To:...

I suspect your rows/columns of your LD matrix are not named. I should make check_dataset() check for that

Does it mean that given H4 is >95% true, the probability of the individual SNP to be the shared causal variant is 0.01? Yes, almost exactly. If​ H4 is true...

I don't think this is right, no. If you mean they filter to include only snps significant for an eqtl and then try and colocalise with the gwas, they are...

coloc evaluates different hypotheses including no causal variants for either trait, so you need statistics for variants that cover the whole region of interest in both traits, not just the...

Because coloc.abf doesn't allow for more than one casual variant per trait. Coloc.susie allows for that https://chr1swallace.github.io ________________________________ From: cy6n ***@***.***> Sent: Thursday, March 9, 2023 9:58:49 PM To: chr1swallace/coloc...

You need to analyse each gene separately, after all you are testing a separate colocalisation hypothesis for each gene. -- https://chr1swallace.github.io ________________________________ From: PyunJung-Min ***@***.***> Sent: Friday, August 11, 2023...

sorry, no. but you probably don't want to run 19250 genes. You know whether each of them have a significant signal in your region of interest, so can discard the...

can you please download the latest version from github? This issue should be fixed.