Question: GWAS analysis tool
gravatar for arshad1292
10 months ago by
arshad129240 wrote:

I am going to start GWAS analysis for human genome. Any recommendation which tools should I use? Also, it would be great if you could please send me a link to tutorial with mock data so I can practice first before working on the real data.

I am new to GWAS analysis so please help me. Many thanks in advance.

snp R genome • 1.3k views
ADD COMMENTlink modified 6 months ago by breckuh20 • written 10 months ago by arshad129240

Many thanks for your response. I have been busy and now starting to work on this. Cheers!

ADD REPLYlink written 8 months ago by arshad129240
gravatar for zx8754
10 months ago by
zx87547.3k wrote:

Read about plink and search for "plink tutorial GWAS". Also, related biostars post:

Analyzing Genomewide Association Study Data: A Tutorial Using Plink
Course: Practical GWAS Using Linux and R

There are many R packages, too:

ADD COMMENTlink modified 10 months ago • written 10 months ago by zx87547.3k
gravatar for breckuh
6 months ago by
breckuh20 wrote:

I would recommend the book "Genome-Wide Association Studies and Genomic Predictions". It was published in 2013, so I thought it might be outdated given the newness and pace of the GWAS field, but I've found many of the chapters to be highly relevant, and they have saved me a lot of time with my first GWAS project, particularly the chapters related to quality control and plink.

ADD COMMENTlink written 6 months ago by breckuh20
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