samr-internal {samr} | R Documentation |
Internal samr functions
ttest.func(x, y, s0 = 0, sd=NULL) wilcoxon.func(x, y, s0 = 0) onesample.ttest.func(x, y, s0 = 0, sd=NULL) paired.ttest.func(x, y, s0 = 0, sd=NULL) cox.func(x, y, censoring.status, s0 = 0) multiclass.func(x, y, s0 = 0) quantitative.func(x, y, s0 = 0) patterndiscovery.func(x,s0=0, eigengene.number=1) timearea.func(x, y, s0 = 0) sumlengths(aa) detec.slab(samr.obj, del, min.foldchange) detec.horiz(samr.obj, cutlow, cutup, min.foldchange) localfdr(samr.obj, min.foldchange, perc = 0.01, df = 10) predictlocalfdr(smooth.object, d) qvalue.func(samr.obj, sig, delta.table) foldchange.twoclass(x, y, logged2) foldchange.paired(x, y, logged2) est.s0(tt, sd, s0.perc = seq(0, 1, by = 0.05)) coxscor(x, y, ic, offset = rep(0, length(y))) coxvar(x, y, ic, offset = rep(0, length(y)), coxstuff.obj = NULL) coxstuff(x, y, ic, offset = rep(0, length(y))) permute(elem) sample.perms(elem, nperms) permute.rows(x) insert.value(vec, newval, pos) integer.base.b(x, b = 2) varr(x, meanx = NULL) mysvd(x, n.components=NULL) getperms(y, nperms) compute.block.perms(y, blocky, nperms) parse.block.labels.for.2classes(y) parse.time.labels.and.summarize.data(x, y, resp.type,time.summary.type) check.format(y, resp.type, censoring.status = NULL) samr.const.quantitative.response samr.const.twoclass.unpaired.response samr.const.survival.response samr.const.multiclass.response samr.const.oneclass.response samr.const.twoclass.paired.response samr.const.twoclass.unpaired.timecourse.response samr.const.twoclass.paired.timecourse.response samr.const.oneclass.timecourse.response samr.const.patterndiscovery.response samr.xl.const.response.types.table samr.xl.build.data(x, y, geneid, genenames, logged2, resp.type) samr.xl.compute.plot.xy(samr.obj, del, min.foldchange = 0, plot = FALSE) samr.xl.parse.survival(y) samr.xl.parse.patterndiscovery(y) samr.xl.error.trace() samr.xl.impute.data(data.obj)
These are not to be called by the user.
Balasubrimanian Narasimhan and Robert Tibshirani