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I try to run fitted_rss1
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The all studies v1.0.3 table downloaded from the UI (https://www.ebi.ac.uk/gwas/api/search/downloads/studies_new) does not currently include any data for the summary stats location, i.e. the column 'S…
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Dear Omeed,
I have two phenotypes that are moderately correlated (rho = 0.6). Therefore, I used MTAG to boost the power of my single-GWASs. However, when inspecting the results, I see that some of …
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Hi,
First time using your package.
I'm wondering if you have a manual for running conditional analysis. Thanks
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### Background
- CNV (copy number variation) studies are GWAS that look at a different kind of genetic variant compared to the SNPs identified in standard GWAS.
- At an earlier stage of the GWAS Cata…
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Hi Zhili,
I got this error when I was running the SNP imputation step. It was running fine until the very end. I am wondering if this is some system libraries for C/C++ that I don't have on my clu…
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1. I have case-control GWAS summary statistics that do not have the N-columns. How to define 'N'? Should I use N-cases or N-total to define 'N' ?
2. Can I run MTAG chromosome by chromosome because of…
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Hi,
thank you for providing such a fantastic tool! It’s exactly what I needed for integrating GWAS summary data with scRNA-seq data.
While using this tool, I encountered a question regarding th…
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Hello @anglixue,
I have been trying to run mtCOJO on a trait, adjusting for 3 other traits using GCTA v1.94.1 and this is the error message I received:
```
Error: the variance-covariance matrix o…
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I have prepared the format files such as chr,bpos,a1,a2,snpid,beta,se,pval,freq,N,z.When I run the MTAG, I am faced with an error. Here is the log:
Calling ./mtag.py \
--stream-stdout \
--n-min 0.…