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Local FDR estimation software
LFDRenrich is a suite of R functions for the estimation of local false discovery rates by maximum likelihood under a two-component or three-component parametric mixture model of 2X2 tables such as those used in gene enrichment analyses.
LFDRhat is a more general suite of R functions for the estimation of local false discovery rates by maximum likelihood under a two-component or three-component parametric mixture model.
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LFDRenrich as well as LDFRhat is now available from the above link.