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In applying MRlap I ran into the issue of LD clumping using TwoSampleMR::clump_data requiring an active internet connection. When no internet connection is available this will cause MRlap to fail. This can be an issue when submitting to jobs compute cluster.
A potential solution to this is using ieugwasr::ld_clump (which clump_data calls) with the option of specifying a local plink binary and LD reference to perform clumping locally.
Thanks!
The text was updated successfully, but these errors were encountered:
Hi,
In applying MRlap I ran into the issue of LD clumping using
TwoSampleMR::clump_data
requiring an active internet connection. When no internet connection is available this will cause MRlap to fail. This can be an issue when submitting to jobs compute cluster.A potential solution to this is using
ieugwasr::ld_clump
(whichclump_data
calls) with the option of specifying a local plink binary and LD reference to perform clumping locally.Thanks!
The text was updated successfully, but these errors were encountered: