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

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