eagle.helper: Helper function to run the EAGLE procedure.

In davidaknowles/eagle: Environment-ASE through Generalized LinEar modeling

Usage

eagle.helper(alt,n,xFull,xNull,s)

Arguments

alt	list (over exonic SNPs) of alternative read counts
n	list (over exonics SNPs) of total read counts
xFull	list of design matrices for the alternative hypothesis (e.g. including environment)
xNull	list of design matrices for the null hypothesis
s	list of settings. Create using eagle.settings() and then customize.

Value

The returned list is the same as for eagle:

p.values	$p$-values for the likelihood ratio tests.
q.values	Corresponding $q$-values calculated using Benjamini-Hochberg FDR.
res.full	Results for the full (alternative) design matrices. See eagle.vem for details.
res.null	Results for the null design matrices.
settings	Settings used, see eagle.settings
timeFirst	Computation time for first run.
timeSecond	Computation time for second run.
res.firstOld	If the first run was re-run after fitting hyperparameters, then these are the results of that initial run.

davidaknowles/eagle documentation built on May 14, 2019, 9:35 p.m.