How To Use The Scan Annotation Software · Biostar

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How To Use The Scan Annotation Software

Hi everybody!

I am using SCAN annotation tool to annotate a list of SNPs from my GWAS. In particular I am trying to use "LD annotations" option to look at genes in LD with my variants. However I didn't understand on which population is the LD calculation made on: indeed it is not specified (in the paper they don't say it clearly, for other options they use CEU and YRI). Have anybody here ever used SCAN tool? What do you think about it?

Thank you!

Bye

Giacomo

annotation

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updated 13.8 years ago by Istvan Albert

• written 13.8 years ago by giacomogiacalone •

If you have NGS data maybe you should think about trying the VAAST pipeline. It is an annotation tool and probabilistic gene hunter. http://www.yandell-lab.org/software/vaast.html

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written 13.8 years ago by Zev.Kronenberg

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