GRCh38 compatibility?

[Jamie Catalano]

I am hoping to use FUMA on GWAS summary statistics that use GRCh38. Within the SNP2GENE function I provide GWAS column names for chromosome, position, p value, effect allele, and non-effect allele. When I try to check the box for input build GRCh38 I am unable to (see image).

 

Is FUMA currently GRCh38 compatible? If so, can you provide insight for how I should approach submission so that I can check the GRCh38 box?

[Tanya Phung]

The GRCh38 feature was in beta testing and it resulted in a lot of issues. Due to staff shortage, we decided to pause this feature for now. 

For now, please submit your summary statistics in hg19 format, and please follow the tutorial if there's additional issues. You can use liftover to convert between genome assembly. 

Thank you for understanding.

[Jenny Chang]

got it

Tanya Phung 在 2024年7月2日 星期二晚上9:14:29 [UTC+8] 的信中寫道：

[salvado...@yahoo.com]

 Did you pause this feature forever?I havent any choice  about " GRCh38  ".