if, by "meta eqtl" you mean metaanalysis of eqtl associations, a crude
approach is available.  given a set of smlSets from different populations,
meqtlTests will harmonize the loci by name and compute the sum of
association statistics across the populations.  the ultimate results are of
the same size as a single analysis.  this particular approach has not
gotten much mileage lately as we tend to do the separate analyses and
combine later, now that we have sufficient disk.  if you run into problems
you can contact me directly.

> args(meqtlTests)
function (listOfSmls, rhslist, runname = "mfoo", targdir = "mfoo",
    geneApply = lapply, shortfac = 100, checkValid = TRUE, useUncertain =
TRUE,
    glmfamily = "gaussian")
NULL



On Tue, Mar 18, 2014 at 2:16 PM, Fabrice Tourre <fabrice.ciup@gmail.com>wrote:

> Dear expert,
>
> I knew GGtools can do eqtl search. But I want a package to do meta
> eqtl. Because I cannot store all the output from the eqtl. I cannot do
> two eQTL separately, then combined them.
>
> Thank you very much in advance.
>
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