METAL

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Complaints over gcf

5

I appeared to come across a fixable issue to do with the Numerical Recipes routine. My log says FATAL ERROR - a too large, ITMAX too small in gamma countinued...

jinghuazhao

What does the warning: "Bad alleles for marker '', expecting 'a/c' found 'a/g' mean?

3

Hi, I am getting a lot of warnings with the above text. I found the source code origin of the warning: ``` if (allele1[marker] == "") allele1[marker] = tokens[firstColumn], allele2[marker]...

ghost

Heterogeneity analysis fails

7

During meta-analysis of 18 cohorts the heterogeneity analysis fails with the following error message: ## ERROR: Input file has changed since analysis started When rerunning the same analysis with fewer...

lindabroer-g

Is there a file size or SNP amount limit when using METAL?

3

Hi there, I am trying to meta-analyse two summary statistic files together which differ greatly in size (3.2gb, 600mb). The large file contains ~58M SNPs while the small file contains...

dzimmerman-amc

Allele flipping for all SNPs?

3

Hi, I've checked both of my input files at least 10 times and for some reason the A1 and A2 alleles get flipped in the METAL output files. This isn't...

LindsayMMB

Hi, I just have a question about MINWEIGHT, I am running a meta-analysis between 3 studies all that have a small sample size and an imbalance between cases/controls. I have...

isabelleboothman

Allele flipping logic in METAL

6

After examining METAL output, I observed that it only outputs the following Allele1-Allele2 combinations: > A C > A G > A T > C G > T C >...

weinstockj

Unexpected error during processing

2

Hi there, I tried to use METAL to process a single file, but during the processing, I got errors like duplicated detected, only the first occurrence is used. But I...

ryshi06

VERBOSE ON mode not working in v 2020-05-05

1

I downloaded the latest version of METAL (2020-05-05) and tried running with the flag `VERBOSE ON`. The log file is indicating that the mode is turned on: `## Verbose output...

croselli

How to use OVERLAP ON option?

1

I'm trying to perform the meta-analysis of two GWAS studies and I would like to correct for the overlapped samples. Could you please share an example code with OVERLAP ON?

Mahantesh-Biradar