| cb7b3ea1 |
# Generated by roxygen2: do not edit by hand
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| cda2cbc7 |
export(CLR_FN)
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| cb7b3ea1 |
export(DESEQ_FN)
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| 450e1a63 |
export(FQT_FN)
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| cb7b3ea1 |
export(FQ_FN)
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| 1302a82a |
export(SCRAN_FN)
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| fa8db851 |
export(SUM_FN)
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| 53885e45 |
export(SconeExperiment)
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| cb7b3ea1 |
export(TMM_FN)
export(UQ_FN)
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| e9aed5e1 |
export(biplot_color)
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| 05319c07 |
export(biplot_interactive)
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| 67bafa27 |
export(estimate_ziber)
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| f4ab8dd0 |
export(factor_sample_filter)
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| b05fe708 |
export(fast_estimate_ziber)
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| 6e63d95c |
export(impute_expectation)
export(impute_null)
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| cb7b3ea1 |
export(lm_adjust)
export(make_design)
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| f4ab8dd0 |
export(metric_sample_filter)
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| d9a78035 |
export(sconeReport)
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| d1e99562 |
export(scone_easybake)
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| cb7b3ea1 |
export(score_matrix)
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| d9a78035 |
export(simple_FNR_params)
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| 4b6fc70a |
exportClasses(SconeExperiment)
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| 53885e45 |
exportMethods(SconeExperiment)
exportMethods(get_batch)
exportMethods(get_bio)
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| 52bb0a2e |
exportMethods(get_design)
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| 53885e45 |
exportMethods(get_negconeval)
exportMethods(get_negconruv)
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| 019b4fe7 |
exportMethods(get_normalized)
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| 664a1a3f |
exportMethods(get_params)
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| 53885e45 |
exportMethods(get_poscon)
exportMethods(get_qc)
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| 49694464 |
exportMethods(get_score_ranks)
exportMethods(get_scores)
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| 54e73b8f |
exportMethods(scone)
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| 96851058 |
exportMethods(select_methods)
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| cb7b3ea1 |
import(BiocParallel)
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| 4b6fc70a |
import(SummarizedExperiment)
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| f4ab8dd0 |
import(gplots)
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| 4b6fc70a |
import(methods)
importClassesFrom(SummarizedExperiment,SummarizedExperiment)
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| e1597fcb |
importFrom(RColorBrewer,brewer.pal)
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| cb7b3ea1 |
importFrom(RUVSeq,RUVg)
importFrom(aroma.light,normalizeQuantileRank.matrix)
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| 8e5d7a78 |
importFrom(boot,inv.logit)
importFrom(boot,logit)
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| cb7b3ea1 |
importFrom(class,knn)
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| 61b47fa6 |
importFrom(cluster,silhouette)
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| cda2cbc7 |
importFrom(compositions,clr)
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| f4ab8dd0 |
importFrom(diptest,dip.test)
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| cb7b3ea1 |
importFrom(edgeR,calcNormFactors)
importFrom(fpc,pamk)
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| 180125b7 |
importFrom(grDevices,colorRampPalette)
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| 4b0215e4 |
importFrom(grDevices,dev.off)
importFrom(grDevices,pdf)
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| 2424a11d |
importFrom(graphics,abline)
importFrom(graphics,arrows)
importFrom(graphics,barplot)
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| af3da307 |
importFrom(graphics,boxplot)
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| 2424a11d |
importFrom(graphics,hist)
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| 4b0215e4 |
importFrom(graphics,legend)
importFrom(graphics,lines)
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| 2424a11d |
importFrom(graphics,par)
importFrom(graphics,plot)
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| 4b0215e4 |
importFrom(graphics,points)
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| 2424a11d |
importFrom(graphics,text)
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| e1597fcb |
importFrom(hexbin,hexbin)
importFrom(hexbin,plot)
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| cb7b3ea1 |
importFrom(limma,lmFit)
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| 95a0cbf7 |
importFrom(matrixStats,colIQRs)
importFrom(matrixStats,colMedians)
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| cb7b3ea1 |
importFrom(matrixStats,rowMedians)
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| f4ab8dd0 |
importFrom(mixtools,normalmixEM)
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| f4cbf2b3 |
importFrom(rARPACK,svds)
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| c440ebf7 |
importFrom(rhdf5,H5close)
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| fc8c8c37 |
importFrom(rhdf5,h5createFile)
importFrom(rhdf5,h5ls)
importFrom(rhdf5,h5read)
importFrom(rhdf5,h5write)
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| ac6774ec |
importFrom(rhdf5,h5write.default)
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| 2424a11d |
importFrom(stats,approx)
importFrom(stats,as.formula)
importFrom(stats,binomial)
importFrom(stats,coefficients)
importFrom(stats,contr.sum)
importFrom(stats,cor)
importFrom(stats,dist)
importFrom(stats,dnbinom)
importFrom(stats,fitted.values)
importFrom(stats,glm)
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| af3da307 |
importFrom(stats,lm)
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| 2424a11d |
importFrom(stats,mad)
importFrom(stats,median)
importFrom(stats,model.matrix)
importFrom(stats,na.omit)
importFrom(stats,p.adjust)
importFrom(stats,pnorm)
importFrom(stats,prcomp)
importFrom(stats,quantile)
importFrom(stats,quasibinomial)
importFrom(stats,sd)
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| af3da307 |
importFrom(stats,setNames)
importFrom(stats,var)
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| 2424a11d |
importFrom(utils,capture.output)
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| 4b0215e4 |
importFrom(utils,head)
importFrom(utils,sessionInfo)
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| af3da307 |
importFrom(utils,write.csv)
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| 4b0215e4 |
importFrom(utils,write.table)
|
