ERROR: 1 (Input file format was not correct / There was no SNPs remained after formatting the input summary statistics.)

Penny

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Sep 16, 2019, 6:40:45 AM9/16/19

to FUMA GWAS users

Hi,

I got an error saying that "Input file format was not correct / There was no SNPs remained after formatting the input summary statistics" (Job number 56016). I have specified the column names as suggested in the instruction. Below is an example of my input file. Could you suggest how to fix this?

Kyoko Watanabe

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Sep 16, 2019, 6:48:36 AM9/16/19

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Hi, I'm sorry for the error.

Do you use tab in the header and single space for other rows?

FUMA assumes all lines have the same delimiter so if that's the case could you replace tab in the header to space then try again?

If that does not solve the problem, I'll follow up further.

Best,

Kyoko

pimph...@mahidol.edu

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Sep 16, 2019, 7:32:29 AM9/16/19

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Thanks very much for the prompt reply! You are right about the space delimited!

Another question - would you have any suggestion if I would like to run FUMA for 200+ summary statistics files?

Cheers,

Penny

Kyoko Watanabe

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Sep 16, 2019, 7:55:03 AM9/16/19

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It's currently not easy to run that many GWAS on FUMA since you have to upload each of them.

But I'm converting FUMA to stand alone so you can run by yourself.

I'm not sure how long it's going to take but aiming to release Oct-Nov this year.