Population stratification with PLINK

Hello,

I do not have cases and controls in my sample. Can I still perform population stratification for my data using PLINK?

snp

• 1,067 views • link

updated 6.1 years ago by Biostar

• written 6.1 years ago by fatma.mokhtar •

Sure you can. Case/control information is not used for pop stratification.

• 0 views • link

written 6.1 years ago by Nicolas Rosewick

0 answers

No answers yet.

More posts like this

Does Plink under perform ? ( GWAS )
written 2.0 years ago by basnet.soren •

Hello, I am performing GWAS in a subset of population which consists of about 250 individual cases. I am running GWAS and association studies on …
GWAS phenotype
written 2.9 years ago by sooni •

Hello. I am a new in GWAS. I have 70 samples. 35 samples are controls and 35 samples are cases. What I'm curious about is …
Case-Control studies : How much Case-Cntrls samples differ from each other
written 3.9 years ago by Lukáš •

I have vcf data from 95 people - 63 Cases and 32 controls. I filtered out possible pathogenic variations and now i want to know …
Operation timed out
written 5.9 years ago by fatma.mokhtar •

Hello; I am trying to download the HapMap data in the Terminal of my Mac, to perform population stratification for my data. Using this command: …
population stratification using PLINK
written 6.1 years ago by fatma.mokhtar •

Hello, If I have a sample of individuals and I know that they are all from one city from one country, should I do population …
Correcting for population substructure in a small sample
written 6.1 years ago by kylec1729 •

I'm running several case-control association analyses on ~50 SNPs with around 1000 cases and 1000 controls. My only "correction" for population stratification so far has …
Export to PLINK file
written 6.2 years ago by fatma.mokhtar •

Hello, I have data in the Axiom analysis suite. I want to export the data in a PLINK form file. I want to use PLINK …
Methods to correct for population stratification
written 10.2 years ago by MAPK

I have been working on GWAS like projects and trying to correct for population stratification in my data. I have performed principal component analysis to …
Plink Family Structure/Population stratification
written 11.5 years ago by Tom •

I'm wondering if someone could please help. I have a population of individuals, some are in families and some are not in families. I have …
ERROR: Stopping due to mis-matching SNPs -- check +/- strand?
written 11.7 years ago by analyticalavailable •

Hello, I'm trying to perform HapMap PCA, after which plink bails and gives me the following message: ERROR: Stopping due to mis-matching SNPs -- check …