| 701ae195 |
# All functions exported other than those starting with "."
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| 01ef1fe7 |
exportPattern("^[^\\.]")
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| 28557c53 |
exportClasses("RGList","MAList","EListRaw","EList","MArrayLM","TestResults","LargeDataObject","Roast","MDS")
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| 01ef1fe7 |
exportMethods("show")
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| 48a9158c |
import(methods)
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| 9360325a |
importFrom("grDevices", "col2rgb", "dev.cur", "dev.off", "png", "rgb")
importFrom("graphics", "abline", "axis", "barplot", "coplot", "image",
"legend", "lines", "matplot", "mtext", "panel.smooth",
|
| cc9daeee |
"par", "plot", "plot.new", "plot.window", "points", "polygon", "rect",
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| 9360325a |
"segments", "text", "title")
|
| daf920ce |
importFrom("stats", "approx", "approxfun", "as.dendrogram", "as.dist",
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| 9360325a |
"coef", "contr.sum", "contrasts<-", "cov", "cov2cor",
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| edbcf941 |
"dist", "density", "df", "dhyper", "dnorm", "filter", "fitted",
"hat", "hclust", "integrate", "isoreg", "lm", "lm.fit", "lm.wfit", "loess",
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| 9360325a |
"lowess", "median", "model.matrix", "na.exclude", "na.omit",
|
| e8ff4777 |
"nlminb", "nls", "nls.control", "optim", "optimize", "p.adjust",
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| 9360325a |
"pbeta", "pchisq", "pexp", "pf", "pgamma", "phyper",
"pnorm", "ppoints", "predict", "pt", "qchisq", "qf",
"qnorm", "qt", "quantile", "residuals", "rnorm", "sd",
"uniroot", "var", "weighted.mean")
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| b009ba62 |
importFrom("utils", "getFromNamespace", "head", "read.delim", "read.table", "tail", "write.table")
|
| e8ff4777 |
importFrom("statmod", "gauss.quad.prob", "logmdigamma", "mixedModel2Fit", "remlscore")
|
| 0783669c |
if( tools:::.OStype() == "windows" ) importFrom("utils", "winMenuAddItem")
|
| 48a9158c |
|
| 01ef1fe7 |
S3method("[",MAList)
S3method("[",MArrayLM)
S3method("[",RGList)
|
| abd94b9f |
S3method("[",EList)
|
| 52c63b39 |
S3method("[",EListRaw)
|
| 16432532 |
S3method("[",TestResults)
|
| 01ef1fe7 |
S3method(anova,MAList)
|
| 5ce86df8 |
S3method(as.data.frame,EList)
|
| b46b0c47 |
S3method(as.data.frame,EListRaw)
|
| 5ce86df8 |
S3method(as.data.frame,MAList)
|
| 01ef1fe7 |
S3method(as.data.frame,MArrayLM)
S3method(as.matrix,MAList)
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| abd94b9f |
S3method(as.matrix,EList)
|
| 52c63b39 |
S3method(as.matrix,EListRaw)
|
| 01ef1fe7 |
S3method(as.matrix,MArrayLM)
S3method(as.matrix,marrayNorm)
S3method(as.matrix,PLMset)
S3method(as.matrix,RGList)
|
| 03ce21df |
S3method(as.matrix,ExpressionSet)
S3method(as.matrix,LumiBatch)
|
| ec6961ad |
S3method(as.matrix,vsn)
|
| 0503c64b |
S3method(avedups,default)
|
| 01ef1fe7 |
S3method(avedups,MAList)
|
| 4b07b087 |
S3method(avedups,EList)
|
| 0503c64b |
S3method(avereps,default)
|
| d44203c0 |
S3method(avereps,RGList)
|
| 079bfc03 |
S3method(avereps,MAList)
|
| d44203c0 |
S3method(avereps,EListRaw)
|
| 4b07b087 |
S3method(avereps,EList)
|
| 0503c64b |
S3method(avearrays,default)
|
| 4b07b087 |
S3method(avearrays,MAList)
S3method(avearrays,EList)
|
| 507e2d9d |
S3method(camera,default)
|
| 69f7864f |
S3method(cameraPR,default)
|
| 01ef1fe7 |
S3method(cbind,MAList)
S3method(cbind,RGList)
|
| abd94b9f |
S3method(cbind,EList)
|
| 52c63b39 |
S3method(cbind,EListRaw)
|
| 019049d2 |
S3method(decideTests,default)
S3method(decideTests,MArrayLM)
|
| 757a2fb9 |
S3method(detectionPValues,default)
S3method(detectionPValues,EListRaw)
|
| 34b560da |
S3method(diffSplice,MArrayLM)
|
| 01ef1fe7 |
S3method(dim,MAList)
S3method(dim,MArrayLM)
S3method(dim,RGList)
|
| abd94b9f |
S3method(dim,EList)
|
| 52c63b39 |
S3method(dim,EListRaw)
|
| 01ef1fe7 |
S3method(dimnames,MAList)
S3method(dimnames,MArrayLM)
S3method(dimnames,RGList)
|
| abd94b9f |
S3method(dimnames,EList)
|
| 52c63b39 |
S3method(dimnames,EListRaw)
|
| 01ef1fe7 |
S3method("dimnames<-",MAList)
S3method("dimnames<-",RGList)
|
| abd94b9f |
S3method("dimnames<-",EList)
|
| 52c63b39 |
S3method("dimnames<-",EListRaw)
|
| 01ef1fe7 |
S3method(fitted,MArrayLM)
|
| 5ce86df8 |
S3method(fry,default)
|
| 0503c64b |
S3method(goana,default)
|
| c05cb596 |
S3method(goana,MArrayLM)
|
| b009ba62 |
S3method(head,RGList)
S3method(head,MAList)
S3method(head,EListRaw)
S3method(head,EList)
S3method(head,MArrayLM)
S3method(head,TestResults)
|
| 61208466 |
S3method(kegga,default)
S3method(kegga,MArrayLM)
|
| adf67bce |
S3method(labels,TestResults)
S3method(levels,TestResults)
|
| 01ef1fe7 |
S3method(merge,MAList)
S3method(merge,RGList)
|
| 4b9b4e7a |
S3method(merge,EList)
S3method(merge,EListRaw)
|
| 5ce86df8 |
S3method(mroast,default)
|
| 507e2d9d |
S3method(roast,default)
S3method(romer,default)
|
| 01ef1fe7 |
S3method(rbind,MAList)
S3method(rbind,RGList)
|
| abd94b9f |
S3method(rbind,EList)
|
| 52c63b39 |
S3method(rbind,EListRaw)
|
| 01ef1fe7 |
S3method(residuals,MArrayLM)
S3method(summary,MAList)
S3method(summary,MArrayLM)
S3method(summary,RGList)
|
| abd94b9f |
S3method(summary,EList)
|
| 52c63b39 |
S3method(summary,EListRaw)
|
| 01ef1fe7 |
S3method(summary,TestResults)
|
| 0503c64b |
S3method(normalizeVSN,default)
|
| 16c974ed |
S3method(normalizeVSN,RGList)
S3method(normalizeVSN,EListRaw)
|
| 0503c64b |
S3method(plotMA,default)
|
| 839dd7e1 |
S3method(plotMA,RGList)
S3method(plotMA,MAList)
|
| 4effd768 |
S3method(plotMA,EListRaw)
|
| 839dd7e1 |
S3method(plotMA,EList)
S3method(plotMA,MArrayLM)
|
| e121c820 |
S3method(plotMD,default)
S3method(plotMD,RGList)
S3method(plotMD,MAList)
S3method(plotMD,EListRaw)
S3method(plotMD,EList)
S3method(plotMD,MArrayLM)
|
| 0503c64b |
S3method(plotMDS,default)
|
| 28557c53 |
S3method(plotMDS,MDS)
|
| 0503c64b |
S3method(plotFB,default)
|
| 7a6ada41 |
S3method(plotFB,RGList)
S3method(plotFB,EListRaw)
|
| 0503c64b |
S3method(plotDensities,default)
|
| 484272f0 |
S3method(plotDensities,RGList)
S3method(plotDensities,MAList)
S3method(plotDensities,EListRaw)
S3method(plotDensities,EList)
|
| b009ba62 |
S3method(tail,RGList)
S3method(tail,MAList)
S3method(tail,EListRaw)
S3method(tail,EList)
S3method(tail,MArrayLM)
S3method(tail,TestResults)
|
| 9975b3c1 |
S3method(unique,TestResults)
|
