SEQanswers

Go Back   SEQanswers > General



Similar Threads
Thread Thread Starter Forum Replies Last Post
Converting VCF to PLINK PED format, need help? ketan_bnf Bioinformatics 2 03-21-2017 01:35 AM
plink files to vcf conversion Vanisha Bioinformatics 10 03-13-2017 10:48 PM
how to convert data from PLINK to BEAGLE ShirleyLiu Bioinformatics 6 01-04-2014 01:09 AM
vcf to plink format conversion problems pepsimax Bioinformatics 0 11-28-2012 07:29 AM
convert casava .txt files to VCF format bio_joe Illumina/Solexa 0 09-25-2012 03:57 AM

Reply
 
Thread Tools
Old 11-29-2012, 03:30 PM   #1
fadista
Member
 
Location: Malmö

Join Date: Sep 2008
Posts: 37
Default convert plink files to VCF

Hi,

I would like to know if anyone has a script/tool to convert plink .map and .ped files into VCF.

We should have in mind that for instance a genotype in the .ped file could be AG, but this could correspond to the reverse strand (TC). Furthermore, it could be that the 1st allele is actually the alternative allele and the 2nd is actually the reference allele (according to the human reference genome), so it could have been GA.

Thanks in advance.
fadista is offline   Reply With Quote
Reply

Tags
convert, plink, vcf

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 03:05 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO