mGWAMA

Genome-wide meta-analysis for complex traits

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Genome-wide meta-analysis for complex traits using GWAS summary statistics.

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Master command

gmeta

Options

--meta-batch/--meta-gz-batch

Specify a file that contains names of all summary data files to be used in a meta-analysis, one file per line:

gwas1.txt

gwas2.txt

...

--qt-size

Specify a file that lists the sample size corresponding to rows in meta-batch file, e.g.:

100

200

...

--keep-atgc

Include palindromic loci (A/T and G/C) in meta-analysis. Otherwise it is clearly known that the reference alleles are set on the same strand, it is suggested to turn this option down.

gear gmeta --meta-batch summary.batch --qt-size size.txt --out gtest