FUMA QTL Analysis

[ANJALI ANJU]

Hi,

I have been getting the same error multiple times. I cant find out the mistake. 

FUMA an error occurred

This is unfortunate! An error occurred during the process of your xqtls job (job ID: 740392, job title: NEW).
ERROR:inputGwasHeader

Incorrect header format for the input gwas summary statistics for the locus.

This is my FUMA input for QTL analysis

SNP CHR BP A1 A2 BETA SE P MAF OR rs74477937 7 39559290 T C 1.35222 0.263539 2.882e-07 0.07605 3.866 rs78707086 7 39570841 A G 1.295275 0.242856 9.633e-08 0.089 3.652 rs118129027 7 39585411 C T 1.321489 0.250996 1.402e-07 0.083175 3.749

[Tanya Phung]

Hello, 

Your input file does not match with the expected input. Please check: https://fuma-docs.readthedocs.io/en/latest/qtl/prepare_input_files.html#prepare-input-qtl

[ANJALI ANJU]

Thank you very much Tanya. 

I  tried again with a new input file. 

CHR POS         REF ALT N BETA         P         MAF
7 39559290 C T 512 1.35222         2.882e-07 0.07605
7 39570841 G A 512 1.295275 9.633e-08 0.089
7 39585411 T C 512 1.321489 1.402e-07 0.083175

But unfortunately got the same error. 

FUMA an error occurred

This is unfortunate! An error occurred during the process of your xqtls job (job ID: 740781, job title: QTL Analysis SUD).
ERROR:inputGwasHeader

Incorrect header format for the input gwas summary statistics for the locus.

Is there anything else i need to change further. 

Regards,

Anjali

[Tanya Phung]

Hello, 

It seemed that you did not prepare the file following the format, as there are random space characters shown below: 

In addition, in this analysis, it expects all gwas variants within a genetic locus. I have tested this with >50 gwas variants per locus. So I don't know if it is meaningful to run the QTLs analysis with 3 variants. 

Best,
Tanya