Question: Compare positions of GWAS SNPs to peaks called in MACs
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gravatar for cmharro
23 months ago by
cmharro0
cmharro0 wrote:

Hello,

I have downloaded a list of SNPs from the GWAS Catalog, and I want to compare the positions of these SNPs to see if they overlap with peaks called in MACs from sequencing data. What is the best way for somebody with limited bioinformatics experience of doing this?

snp position catalog gwas macs • 676 views
ADD COMMENTlink written 23 months ago by cmharro0

You can use intersectBed feature from bedtools. Prepare your SNP file in bed format and follow this

ADD REPLYlink written 23 months ago by venu6.1k

venu - I want to do this also, but map human GWAS to mouse peaks....suggestions?

ADD REPLYlink written 22 months ago by YaGalbi1.4k
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