[BioC] Linkage disequilibrium with 1000 Genomes/HapMap

[Enrico Ferrero]

Hi,

I have a set of SNPs associated with a specific trait and I would like
to know to what other SNPs, in the 1000 Genomes [1] or HapMap [2]
projects, they are in linkage disequilibrium (LD) with.

Is there anything in Bioconductor (or CRAN) that can help me answer
this question? I'm basically looking for something like SNAP Pairwise
LD [3] from the Broad Institute.

Thanks!

[1] http://www.1000genomes.org/
[2] http://hapmap.ncbi.nlm.nih.gov/
[3] https://www.broadinstitute.org/mpg/snap/ldsearchpw.php

-- 
Enrico Ferrero