Reference Data Set Download from 1000 genomes

Question

[karthick.n]

Hi,

I want to perform population stratification analysis. I need to download indian genomes along with other ancestry genomes from 1000 genomes data set. How to download that. There are so many release in 1000 genomes. Can you post the link?

Regards,
Karthick

[karthick.n]

Hi I have created the plink files based on the tutorial mentioned above . But the snp ids are like as follows: (chr:position:allele1:allele2). There is no rs ID. But my sample data has rsIDs. How to compare both when they have inconsistent SNP ids?

1       1:14599:T:A     0       14599   A       T
1       1:14930:A:G     0       14930   G       A
1       1:15211:T:G     0       15211   T       G
1       1:15274:A:G     0       15274   G       A

[Yean]

Try SnpSift to annotate rsID based on your position in vcf file http://snpeff.sourceforge.net/SnpSift.html#annotate

[GenoMax]

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Answer 1

[Yean]

Please check Kevin's tutorial

[karthick.n]

Thank you very much! Yean.

Best, Karthick