GCTA file formats

.mlma file

This file contains the summary statistics of the linear mixed-model association tests. Similar to the PLINK .qassoc files, the file has a header line followed by a set of statistics for each SNP

column	description
Chr	Chromosome code
SNP	Variant identifier
bp	Base-pair coordinate
A1	A1 allele from the PLINK .bim file
A2	A2 allele from the PLINK .bim file
Freq	Frequency of the A1 allele
b	Regression coefficient or SNP effect
se	standard error of the regession coefficient
p	p-value