Package 'metagenomeSeq' - Bioconductor

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46 INDEXplotFeature, 37plotGenus, 38, 42plotMRheatmap, 39, 42plotOrd, 40, 42plotOTU, 41, 42, 44plotRare, 42posterior.probs, 30, 43posterior.probs,MRexperiment-method(posterior.probs), 43qiimeLoader (load_metaQ), 25quantile, 14rowMeans,MRexperiment-method(MRexperiment), 30rowSums,MRexperiment-method(MRexperiment), 30settings2 (zigControl), 44uniqueFeatures, 43zigControl, 19, 44
Page 1: Package ‘metagenomeSeq’May 22,
Page 5 and 6: calculateEffectiveSamples 5ValueA M
Page 7 and 8: cumNorm 7ArgumentsValueobjmethodalt
Page 9 and 10: cumNormStat 9cumNormStatCumulative
Page 11 and 12: doEStep 11ArgumentszymmCountstillAc
Page 13 and 14: exportMat 13See AlsofitZigexportMat
Page 15 and 16: filterData 15Author(s)Joseph N. Pau
Page 17 and 18: fitMeta 17fitMetaComputes a slightl
Page 19 and 20: getCountDensity 19See AlsocumNorm z
Page 21 and 22: getPi 21ArgumentszMatrix (m x n) of
Page 23 and 24: libSize 23ArgumentsepstolstillActiv
Page 25 and 26: load_metaQ 25ValueA list with objec
Page 27 and 28: makeLabels 27Referenceshttp://www.n
Page 29 and 30: MRcounts 29Examplesdata(lungData)k
Page 31 and 32: MRexperiment2biom 31As mentioned ab
Page 33 and 34: MRtable 33See AlsofitZig MRcoefs MR
Page 35 and 36: normFactors 35ArgumentscountsphenoD
Page 37 and 38: plotFeature 37plotFeatureBasic plot
Page 39 and 40: plotMRheatmap 39Examplesdata(mouseD
Page 41 and 42: plotOTU 41plotOTUBasic plot functio
Page 43 and 44: posterior.probs 43posterior.probsAc
Page 45: Index∗Topic packagemetagenomeSeq-

Package 'metagenomeSeq' - Bioconductor

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