Browse code

Export plotCNSetLM for debugging.

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/crlmm@49130 bc3139a8-67e5-0310-9ffc-ced21a209358

Rob Scharp authored on 30/08/2010 19:40:28
Showing1 changed files

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@@ -56,23 +56,11 @@ importFrom(mvtnorm, dmvnorm)
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 importFrom(ellipse, ellipse)
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-<<<<<<< HEAD
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-importFrom(ff, ffdf, physical.ff, physical.ffdf)
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-importClassesFrom(oligoClasses, ffdf, ff_matrix)
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-
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-exportMethods(lines)
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-exportMethods(CA, CB)
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-export(crlmm,
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-       crlmmIllumina,
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-       crlmmIlluminaV2,
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-       ellipseCenters,
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-       genotype,
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-       readIdatFiles,
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-=======
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+
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 importFrom(ff, ffdf)
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 exportClasses(CNSetLM, ffdf, list)
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-exportMethods(open, "[", show, lM)
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+exportMethods(open, "[", show, lM, plot)
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 export(crlmm, 
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        crlmmCopynumber, 
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        crlmmIllumina, 
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@@ -80,22 +68,16 @@ export(crlmm,
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        genotype, 
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        readIdatFiles, 
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        readIdatFiles2,
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->>>>>>> Exporting list and ffdf classes so that lM<- assignment works
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        snprma,
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        snprma2,
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        crlmm2,
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-       genotype2, genotypeLD,
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-       crlmmCopynumber2, crlmmCopynumberLD, crlmmCopynumber)
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-export(constructIlluminaCNSet)
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-export(totalCopynumber)
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-export(cnrma, cnrma2)
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-exportMethods(A, B, nuA, nuB, phiA, phiB, corr, tau2, Ns, medians, mads)
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-export(genotypeSummary,
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-       shrinkSummary,
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-       estimateCnParameters)
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-
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-## For debugging
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-## exportPattern("^[^\\.]")
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-
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-
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+       genotype2,
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+       batch,
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+       crlmmCopynumber2,
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+       constructCNSetForIllumina,
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+       validCdfNames)
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+##export(initializeParamObject, biasAdjNP2)
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+##export(construct)
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+
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+export(plotCNSetLM)
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