Question: How to convert bgen data files to PLINK format
0
gravatar for bha
18 months ago by
bha60
bha60 wrote:

I have sequence data which is in .bgen format .

Wanted to convert this into PLINK format. Any suggestion what's the best way to do this?

plink bgen software • 2.1k views
ADD COMMENTlink modified 17 months ago by Biostar ♦♦ 20 • written 18 months ago by bha60
2
gravatar for zx8754
18 months ago by
zx87549.1k
London
zx87549.1k wrote:

Why convert? plink accepts bgen format as input, see:

ADD COMMENTlink modified 18 months ago • written 18 months ago by zx87549.1k

I tried this: plink2 --bgen data.chr22.bgen --make-bed --out ex22 But got this error message:

Error: .bgen file does not contain sample IDs, and no .sample file was specified.

what am i missing in command?

ADD REPLYlink written 18 months ago by bha60
1

Error message is clear, you are missing sample file --sample [filename].

ADD REPLYlink written 18 months ago by zx87549.1k
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: 1045 users visited in the last hour