Go Back   SEQanswers > Sequencing Technologies/Companies > MGISEQ (FKA Complete Genomics)

Similar Threads
Thread Thread Starter Forum Replies Last Post
Convert genotype matrix into plink format pepsimax Bioinformatics 1 01-07-2014 03:45 PM
PhenomicDB: free multi-organism phenotype-genotype database iv_ka_metalife Bioinformatics 0 09-30-2011 07:44 AM

Thread Tools
Old 11-28-2014, 04:13 AM   #1
Junior Member
Location: Iran

Join Date: Nov 2014
Posts: 1
Question how i can use plink for chickens genotype-phenotype analysis???

I am performing a GWAS to detect genomic regions affecting imune responses in chickens! which corrections i must do for my analysis when i'm using plink for this study on chickens??? as you know chromosome numbers is different between human and chickens and by default plink performs commands base on 26 chromosomes ....
i need your helps.
V.raeesi is offline   Reply With Quote
Old 11-29-2014, 07:18 AM   #2
Location: Mountain View, CA

Join Date: Jun 2013
Posts: 15

As a general rule, PLINK help questions should be posted in the plink2-users Google group (!forum/plink2-users ).

With that said, add --dog to use your data with PLINK 1.07 (chickens and dogs happen to have the same number of chromosomes). "--chr-set 38" also works in PLINK 1.9; see .
chrchang is offline   Reply With Quote

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 10:10 AM.

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