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codae update

edit NAMESPACE file to remove R CMD check warning


git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Rtreemix@88562 bc3139a8-67e5-0310-9ffc-ced21a209358

Sonali Arora authored on 07/04/2014 23:09:04
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@@ -7,7 +7,7 @@ import(graph)
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 importFrom("Hmisc", "rcorr")
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 ##import(Rgraphviz)
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-importFrom("graphics", "plot")
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+##importFrom("graphics", "plot")
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 ## Classes to be exported
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 exportClasses(RtreemixData, RtreemixModel,
Browse code

added the Rtreemix package and removed the bim package

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/Rtreemix@28790 bc3139a8-67e5-0310-9ffc-ced21a209358

Herve Pages authored on 16/11/2007 21:25:16
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new file mode 100644
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@@ -0,0 +1,31 @@
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+useDynLib(Rtreemix)
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+
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+import(Biobase)
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+import(methods)
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+import(graph)
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+
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+importFrom("Hmisc", "rcorr")
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+
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+##import(Rgraphviz)
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+importFrom("graphics", "plot")
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+
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+## Classes to be exported
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+exportClasses(RtreemixData, RtreemixModel,
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+              RtreemixSim, RtreemixStats, RtreemixGPS)
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+
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+## Methods to be exported
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+exportMethods(initialize, print, show,
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+          Sample, Events, Patients, Description, sampleSize, eventsNum, ##RtreemixData
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+          "Events<-", "Patients<-", "Description<-",  ##RtreemixData
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+          Weights, "Weights<-", WeightsCI, Resp, CompleteMat, Star, Trees, numTrees, getTree, getData, plot, ## RtreemixModel
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+              Model, LogLikelihoods, WLikelihoods, getResp, ## RtreemixStats
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+              SamplingMode, SamplingParam, GPS, gpsCI, ## RtreemixGPS
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+          SimPatterns, SamplingTimes, WaitingTimes, getModel, noDraws, ## RtreemixSim
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+              fit, bootstrap, likelihoods, gps, confIntGPS, sim, generate, distribution ## other methods
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+              )
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+
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+## Functions to be exported
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+export(Pval.dist, kullback.leibler, L1.dist, cosin.dist, L2.norm, euclidian.dist, rank.cor.dist, ## similarity measures for vectors
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+       get.tree.levels, comp.models, comp.models.levels, comp.trees, comp.trees.levels, ## similarity measures for tree topologies
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+       stability.sim  ## stability analysis function
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+       )