Question: Plink Meta-Analysis Data Without Standard Error Column (Se)
2
gravatar for lsvijfhuizen
6.6 years ago by
lsvijfhuizen90
lsvijfhuizen90 wrote:

Dear all,

I would like to run the basic command for the meta-analysis as follow: plink --meta-analysis study1.assoc study2.assoc

PLINK will search the header row for the columns:

  • SNP SNP idenitifier

  • OR Odds ratio (or BETA, etc)

  • SE Standard error of OR (or user-defined weight field)

  • P (Optional) p-value from test

My problem is that file 2 (study2.assoc) does not contain SE (standard error) numbers. File study2.assoc contains three columns named SNP, OR and P. Is there a way to calculate the SE based on these three columns? The three columns is the only information that i have.

I hope that someone can help me with this problem!

Groetjes Lisanne

analysis plink error • 5.6k views
ADD COMMENTlink modified 5.1 years ago by melody.zxuan0 • written 6.6 years ago by lsvijfhuizen90
1
gravatar for zx8754
6.6 years ago by
zx87548.0k
London
zx87548.0k wrote:

How to calculate Standard Error of Odds Ratios? http://stats.stackexchange.com/questions/10375/how-to-calculate-standard-error-of-odds-ratios

ADD COMMENTlink written 6.6 years ago by zx87548.0k
0
gravatar for melody.zxuan
5.1 years ago by
melody.zxuan0 wrote:

Specify the --ci 0.95 command to your --linear or --assoc or --logistic tests, then  you'll get SE  column along with 95% confidence intervals.

ADD COMMENTlink written 5.1 years ago by melody.zxuan0
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 542 users visited in the last hour