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Task is to perform the harmonisation on GWAS Catalog summary statistics synched from the EBI FTP.
The full size of the dataset (on 2024-10-14) was:
```
❯ gsutil ls 'gs://gwas_catalog_inputs/raw_summa…
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I suggest to add the QC flag(s) to study index after GWAS QC.
A bit unclear how it interferes with other steps in GWAS catalog processing tho.
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The creator of this submission (https://www.ebi.ac.uk/gwas/deposition/submission/67001be72500c60001d84d4b) did not work on it for 30 days and it was therefore deleted. The creator then contacted us to…
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I have recently been running a MegaPRS on some meta-analysis summary statistics and using 1000G as a reference panel. This is something I have run earlier this year (prior to version 6) and it worked …
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Dear Kyoko,
I am wondering whether Harmonized GWAS summary statistics is available from GWAS atlas? I want to download some disease specific GWAS statistics from GWAS atlas to follow by MTAG meta-…
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We run the gwas based on our WGS dataset ,so no imputation ,no INFO value. So is there no need to run the Quality Control of GWAS summary statistics?
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Hello,
I am planning a large-scale neuroimaging analysis that would also require extracting individual univariate GWAS results for each phenotype. Would you be able to advise on how the computatio…
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Dear Dr. Lin:
This https://rpubs.com/ZhaotongL/cisMRcML_vignette seems quite easy to understand. Thanks!
However, my **exp_df** and **out_df** do NOT have **cor** and **cor_se**. The above tu…
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Hi, I was trying a first run with GWAs summary statistics and encountered the below error. I was using the sparse LD matrix based on hapmap ukbEUR. I had downloaded the matrices available here: https:…
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Dear scPagwas 研究团队，
您的工作非常好，对GWAS和scRNA-seq整合的研究非常有帮助
我在分析我们的数据中遇到一些问题。
关于 GWAS Summary statistics file的文件，
在gwas文件准备的Tutorial 中，我发现需要 the “maf” column， effect size (ES)，(SE) for each SNP，和beta值。
…