A 3D array with first dimension being the genes, next dimension giving information about the test (the degrees of freedom, Chisq statistic, and P value), and final dimension being the value of these quantities on the discrete, continuous and hurdle (combined) levels.
# S4 method for ZlmFit,character
lrTest(object, hypothesis, ...)ZlmFit
See Details
Arguments passed on to zlm
formulaa formula with the measurement variable on the LHS and predictors present in colData on the RHS
scaSingleCellAssay object
methodcharacter vector, either 'glm', 'glmer' or 'bayesglm'
silentSilence common problems with fitting some genes
ebayesif TRUE, regularize variance using empirical bayes method
ebayesControllist with parameters for empirical bayes procedure. See ebayes.
forceShould we continue testing genes even after many errors have occurred?
hooka function called on the fit after each gene.
parallelIf TRUE and option(mc.cores)>1 then multiple cores will be used in fitting.
LMlikeif provided, then the model defined in this object will be used, rather than following the formulas. This is intended for internal use.
onlyCoefIf TRUE then only an array of model coefficients will be returned (probably only useful for bootstrapping).
exprs_valuescharacter or integer passed to `assay` specifying which assay to use for testing
3D array