How to include BETA and SE in output of METAL
0
0
Entering edit mode
3.6 years ago
anamaria ▴ 220

Hi,

can you please tell me how to include BETA and SE in the output of METAL?

when I just run:

./metal < metal.txt

I just get this columns:

head  METAANALYSIS1.TBL
MarkerName  Allele1 Allele2 Weight  Zscore  P-value Direction
rs2326918   a   g   19586.00    0.254   0.7991  --+
rs668796    c   g   19586.00    -2.064  0.03904 -+-

vi metal.txt


MARKER   SNP
DEFAULTWEIGHT   1211
ALLELE   A1 A2
EFFECT   BETA
STDERR   SE
PVAL     P

PROCESS EDIC.GWAS.reduce.txt

MARKER   SNP
ALLELE   A1 A2
DEFAULTWEIGHT   1363
EFFECT   BETA
STDERR   SE
PVAL     P

PROCESS GOKIND.GWAS.reduce.txt

OUTFILE EDIC_GOKIND_UKB_META.tbl
ANALYZE
metal beta se gwas metagwas • 1.2k views
ADD COMMENT

Login before adding your answer.

Traffic: 2778 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6