Find LD blocks
Hello everybody,
I was looking for a proxy for a certain SNP and couldn't find one (using SNAP, ENSEMBLE). Therefore I would like to look for an LD block which contains my SNP and other SNPs that might be used as good proxies. Anyone knows good tools for that?
Thanks,
Erez
1 answer
rsnps R package (http://cran.r-project.org/web/packages/rsnps/index.html) has a function called "LDSearch" that searches for SNPs in Linkage Disequilibrium with a set of SNPs given as input. May this help?
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Thanks for that alessia.
I'm not proficient with R so I was hoping for a database or a tool that can do it
Erez
This is a tool that is doing it! Read how the function works at page 7: http://cran.r-project.org/web/packages/rsnps/rsnps.pdf You need to know a very little R to have it working!