ERROR:005 No candidate SNPs were found

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Matthew Ennis

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May 26, 2023, 3:04:41 PM5/26/23
to FUMA GWAS users
Hello,

I'm having the following error trying to run FUMA:

ERROR:005 No candidate SNPs were found

I've looked at previous threads and I'm assuming it must be an issue with my input file formats but I can't figure out what the issue is.

This is my input format:

CHROM,GENPOS,ID,ALLELE0,ALLELE1,A1FREQ,INFO,N,TEST,BETA,SE,CHISQ,P,EXTRA

10,60494,rs568182971,G,A,0.999411,0.793024,5143,ADD,0.923628,1.6757,0.30381,0.581503054074023,

I know that I have a significant SNP as it tells me as part of the input (see attached).

Any idea what the issue is?


Many thanks,
Matt.sig.png

d.p.wi...@vu.nl

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Jun 6, 2023, 5:10:16 AM6/6/23
to FUMA GWAS users
Hi Matt,

FUMA is not meant to support comma separated input so I am surprised that you are getting some results. Can you try with a space seperated file? If that still does not work, can you share the jobID?

Cheers,
Doug

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