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When I select traits with higher genetic correlation for MTAG analysis, there are a lot less significant sites in each trait in the output file. What is the reason?
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Hi,
I'd like to hear your opinion in terms of this concern.
One of my colleagues brought the following up.
"GCTA-COJO computes an estimate of the phenotypic variance by looking at the distribution…
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Hello,
I'm having trouble interpreting the results of MTag. I don't know how to utilize these results to identify shared SNPs between phenotypes.could you help me please!
zhanya
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Hi Bob,
**Edit to add**: I know this is a super new package and didn't expect everything to work perfectly, this issue is just to give you a heads up on the error!
Just checking this pkg out, an…
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Dear developer,
I run the command line as below, and I don't understand why the GWAS equiv N is an negative number, is there anything I could adjust to get the correct number?
Also, LDSC gave t…
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The mean chi2 statistic of trait 1 is less than 1.02, which may lead to unstable estimates. To perform MTAG on your results anyways, include the --force option, though the estimates should be interpre…
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Hi, I am still having trouble running MTAG this is the error i am getting when I run my summary stats, ValueError: After merging with reference panel LD, 0 SNPs remain. which I am guessing is due to …
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Hi
I am using mtag for two different traits, then I got error like this. Any idea why is that? Thanks in advance.
Best
Haojie
Calling ./mtag.py \
--se-name StdErr \
--p-name Pvalue \
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I got the following result while running mtag. Kindly help me in this regard.
2023/03/24/11:14:00 AM Beginning MTAG analysis...
2023/03/24/11:14:00 AM MTAG will use the Z column for analyses.
2…
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An interesting error comes out. I have set mtag to use 'Z', I don't know why it still trying to look for 'P'
`mtag.py --sumstats bip.sumstats.txt,scz.sumstats.txt --snp_name SNP --z_name Z --n_nam…