How To Compute A Genetic Map For Snps

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11.7 years ago

Tim ▴ 10

Hello

I do want to use a program which requires a .map file like structure (Chromosome, SNP name, cM, Base pos). The problem is that I don't have the position in cM - is there any way to implement this information from existing genetic maps on the net?

plink snp • 8.3k views

ADD COMMENT • link updated 11.3 years ago by Biostar 20 • written 11.7 years ago by Tim ▴ 10

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Compute genetic map

ADD REPLY • link 11.7 years ago by Pierre Lindenbaum 164k

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If you are using plink then you can leave CM column as 0.

http://pngu.mgh.harvard.edu/~purcell/plink/data.shtml

"Most analyses do not require a genetic map to be specified in any case; specifying a genetic (cM) map is most crucial for a set of analyses that look for shared segments between individuals. For basic association testing, the genetic distance column can be set at 0."

ADD REPLY • link 11.7 years ago by zx8754 12k

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