R help - Jan 2016 - Use of betatree {betareg} to estimate true positives from multiple tests

?Hi,?Doesanyone use the 'betatree' function in the betareg package to do
a kind of falsediscovery rate (FDR) test for a set of many p values??I
wasthinking to compare the beta parameters of the true distribution of about
1000p values with p values of permuted data, and test whether the two
distributionswere significantly different, with a greater mass of low p values
in the truedata. I know this is possible with betatree, I'm just not sure if
it's a 'normal'method.?I knowuniform-beta mixture models are
commonly used to examine FDR, and there are R packagesavailable, but my tests
are non-independent so the null distribution may not beuniform and has to be
found empirically. The mixture model approach assumes there are two groups:
truepositives (beta distribution) and true negatives (uniform distribution). I
think my approach would assume a continuous distributionof effect sizes in the
true data, rather than 2 distinct groups, with a point mass at 0 effect size for
thepermuted data.
I also looked at using the 'betamix' function, but this is much less
accurate and takes longer to run.?Best?Richard.
	[[alternative HTML version deleted]]