# Generated by roxygen2: do not edit by hand

S3method(plot,thresholdSCRNACountMatrix)
S3method(predict,ZlmFit)
S3method(print,summaryThresholdSCRNA)
S3method(print,summaryZlmFit)
S3method(summary,thresholdSCRNACountMatrix)
export(CoefficientHypothesis)
export(FromFlatDF)
export(FromMatrix)
export(Hypothesis)
export(LRT)
export(SceToSingleCellAssay)
export(assay_idx)
export(bootVcov1)
export(burdenOfFiltering)
export(calcZ)
export(collectResiduals)
export(combined_residuals_hook)
export(computeEtFromCt)
export(condSd)
export(condmean)
export(continuous_residuals_hook)
export(convertMASTClassicToSingleCellAssay)
export(defaultPrior)
export(deviance_residuals_hook)
export(discrete_residuals_hook)
export(expavg)
export(filterLowExpressedGenes)
export(fitted_phat)
export(freq)
export(getConcordance)
export(getLogFC)
export(getrc)
export(getss)
export(getwellKey)
export(getwss)
export(gseaAfterBoot)
export(gsea_control)
export(hushWarning)
export(impute)
export(invlogit)
export(logFC)
export(logmean)
export(lrTest)
export(mast_filter)
export(melt.SingleCellAssay)
export(numexp)
export(partialScore)
export(pbootVcov1)
export(plotSCAConcordance)
export(primerAverage)
export(read.fluidigm)
export(stat_ell)
export(thresholdSCRNACountMatrix)
export(waldTest)
export(zlm)
exportMethods("colData<-")
exportMethods(LRT)
exportMethods(logLik)
exportMethods(se.coef)
exportMethods(show)
exportMethods(split)
exportMethods(subset)
exportMethods(summary)
exportMethods(update)
exportMethods(vcov)
import(Biobase)
import(BiocGenerics)
import(S4Vectors)
import(SingleCellExperiment)
import(abind)
import(methods)
import(stringr)
importFrom(Matrix,colSums)
importFrom(Matrix,rowSums)
importFrom(SummarizedExperiment,"colData<-")
importFrom(SummarizedExperiment,'assay<-')
importFrom(SummarizedExperiment,'assayNames<-')
importFrom(SummarizedExperiment,'assays<-')
importFrom(SummarizedExperiment,'rowData<-')
importFrom(SummarizedExperiment,assay)
importFrom(SummarizedExperiment,assayNames)
importFrom(SummarizedExperiment,assays)
importFrom(data.table,"%like%")
importFrom(data.table,":=")
importFrom(data.table,.N)
importFrom(data.table,.SD)
importFrom(data.table,CJ)
importFrom(data.table,as.data.table)
importFrom(data.table,data.table)
importFrom(data.table,dcast)
importFrom(data.table,dcast.data.table)
importFrom(data.table,key)
importFrom(data.table,like)
importFrom(data.table,melt)
importFrom(data.table,melt.data.table)
importFrom(data.table,rbindlist)
importFrom(data.table,set)
importFrom(data.table,setDF)
importFrom(data.table,setDT)
importFrom(data.table,setattr)
importFrom(data.table,setkey)
importFrom(data.table,setkeyv)
importFrom(data.table,setnames)
importFrom(data.table,setorder)
importFrom(data.table,setorderv)
importFrom(ggplot2,Stat)
importFrom(ggplot2,ggproto)
importFrom(ggplot2,layer)
importFrom(graphics,abline)
importFrom(graphics,arrows)
importFrom(graphics,lines)
importFrom(graphics,par)
importFrom(graphics,plot)
importFrom(graphics,points)
importFrom(graphics,rug)
importFrom(graphics,text)
importFrom(plyr,aaply)
importFrom(plyr,laply)
importFrom(plyr,ldply)
importFrom(plyr,raply)
importFrom(plyr,rbind.fill)
importFrom(reshape2,colsplit)
importFrom(stats,"contrasts<-")
importFrom(stats,.checkMFClasses)
importFrom(stats,as.formula)
importFrom(stats,binomial)
importFrom(stats,cov2cor)
importFrom(stats,delete.response)
importFrom(stats,deviance)
importFrom(stats,df.residual)
importFrom(stats,dt)
importFrom(stats,ecdf)
importFrom(stats,family)
importFrom(stats,fitted)
importFrom(stats,formula)
importFrom(stats,gaussian)
importFrom(stats,glm.control)
importFrom(stats,glm.fit)
importFrom(stats,influence)
importFrom(stats,lm.fit)
importFrom(stats,median)
importFrom(stats,model.frame)
importFrom(stats,model.matrix.default)
importFrom(stats,na.pass)
importFrom(stats,napredict)
importFrom(stats,naresid)
importFrom(stats,nobs)
importFrom(stats,offset)
importFrom(stats,optim)
importFrom(stats,optimize)
importFrom(stats,p.adjust)
importFrom(stats,pchisq)
importFrom(stats,predict)
importFrom(stats,pt)
importFrom(stats,qnorm)
importFrom(stats,qt)
importFrom(stats,quantile)
importFrom(stats,relevel)
importFrom(stats,rstandard)
importFrom(stats,setNames)
importFrom(stats,sigma)
importFrom(stats,t.test)
importFrom(stats,terms)
importFrom(stats,terms.formula)
importFrom(stats,update.formula)
importFrom(stats,weighted.residuals)
importFrom(utils,read.csv)
importMethodsFrom(BiocGenerics,subset)
importMethodsFrom(S4Vectors,mcols)
importMethodsFrom(SummarizedExperiment,assay)
importMethodsFrom(SummarizedExperiment,assays)
importMethodsFrom(SummarizedExperiment,colData)
importMethodsFrom(stats4,coef)
importMethodsFrom(stats4,logLik)
importMethodsFrom(stats4,summary)
importMethodsFrom(stats4,update)
importMethodsFrom(stats4,vcov)
