X  SAM-class.Rd delta.plot.Rd ebam.Rd ebam.wilc.Rd find.a0.Rd fudge2.Rd help.sam.Rd link.genes.Rd link.siggenes.Rd list.siggenes.Rd na.handling.Rd na.replace.cont.Rd na.replace.dist.Rd pi0.est.Rd qvalue.cal.Rd sam.Rd sam.dstat.Rd sam.plot2.Rd sam.snp.Rd sam.wilc.Rd sam2excel.Rd sam2html.Rd siggenes-internal.Rd sumSAM-class.Rd class AsIsþ SAM-class delta.plot ebam ebam.wilc find.a0 fudge2 help.sam link.genes link.siggenes list.siggenes na.handling na.replace.cont na.replace.dist pi0.est qvalue.cal sam sam.dstat sam.plot2 sam.snp sam.wilc sam2excel sam2html siggenes-internal sumSAM-classÿ AsIsþ class classÿ AsIsþ Class SAM Delta Plots 'Empirical Bayes Analysis of Microarrays 1Empirical Bayes Analysis using Wilcoxon Rank Sums Computation of the Fudge Factor Fudge Factor 4Help files or argument list for SAM-specific methods Links for a list of genes Links for a SAM object List of the significant genes Handling of Missing Values .Replacing of Missing Values in Continuous Data .Handling of Missing Values in Categorical Data #Estimation of the prior probability Computation of the q-value #Significance Analysis of Microarray )SAM Analysis Using a Modified t-statistic SAM Plot !SAM Analysis for Categorical Data +SAM Analysis Using Wilcoxon Rank Statistics CSV file of a SAM object HTML page for a SAM object Internal siggenes functions Class sumSAMÿ AsIsþ SAM-class SAM identify,SAM-method plot,SAM-method print,SAM-method show,SAM-method summary,SAM-method delta.plot ebam ebam.wilc find.a0 fudge2 help.sam args.sam link.genes link.siggenes list.siggenes na.handling na.replace.cont na.replace.dist pi0.est qvalue.cal sam sam.dstat sam.plot2 plotArguments sam.snp sam.wilc sam2excel sam2html! adjust.for.mt build.dperm cat.stat d.null d.stat pairt.cl.transform pairt.samp pairt.samp.transform Rfold.cal setup.mat.samp stats.cal wilc.stat ebam.old ebam.wilc.old find.a0.old neglogLik.repeat q.value.old q.value.wilc R.fold.old ratio.est rs.cal sam.sampler xy.cal p0.est quantiles add.target2href check.chipname col2hex getTD4Affy make.tablecode pretty.mat.fdr formatSAM pretty.mat.sig sumSAM-class print,sumSAM-method show,sumSAM-methodÿ AsIsþÿ AsIsþ classes hplot htest htest htest optimize documentation IO file IO file IO file utilities utilities utilities htest smooth htest htest htest hplot htest htest IO file IO file internal classesÿ AsIsþ ÿ AsIsþ names File Name Type Title Aliases Concepts Keywords Encoding row.names 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24ÿ data.frameþ