Question: convert .dose.gz and .info.gz files to plink binary format (.bim, .fam, .bed)
gravatar for jongyun.jung
11 months ago by
jongyun.jung10 wrote:

I have imputed data in the format of zipped as filename.dose.gz and info.gz.

1) I was wondering, how can I convert these files to plink binary format?

I used the software of dose2plink and then converted to .pfam and .pdat.gz files. However, I cannot figure out how to convert plink binary format from .pfam and .pdat.gz it. Here is the dose2plink webiste.

2) Another question is to change the alleles (1/2/3/4) to the letter format (A/C/G/T). I know that I can use plink option of --alleleACGT. I was wondering, is it has to be in plink binary format to use this option?

--allele1234 interprets and/or recodes A/C/G/T alleles in the input as 1/2/3/4, while --alleleACGT does the reverse. With the 'multichar' modifier, these will translate multi-character alleles as well, e.g. "--allele1234 multichar" converts 'TT' to '44'.

Thank you for any help!

info plink imputation dose • 564 views
ADD COMMENTlink modified 11 months ago • written 11 months ago by jongyun.jung10
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 700 users visited in the last hour