NAMESPACE

export(basicProfile,
       expandedProfile,
       GOTermsList,
       getAncestorsLst,
       getGOLevel,
       compSummary,
       equivSummary,
       fitGOProfile,
       compareGOProfiles,
       compareProfilesLists,
       compareGeneLists,
       plotProfiles,
       printProfiles,
       mergeProfilesLists,
       as.GOTerms.frame,
       as.GOTerms.list,
       BioCpack2EntrezIDS,
       BioCpack2Profiles,
       BioCprobes2Entrez,
       GOTermsFrame2GOTermsList,
       expandTerm,
       expandedLevel,
       equivalentGOProfiles,
       ngenes,
       fisherGOProfiles,
       contractedProfile,
       equivClust,
       iterEquivClust,
       equivClust2pdf
       )
             
import( AnnotationDbi,
		Biobase,
		GO.db)
importFrom("grDevices", "dev.list", "dev.off", "dev.set", "pdf", "rainbow", "dev.new") 
importFrom("graphics", "plot", "axis", "barplot", "par", "text", "title") 
importFrom("stats", "fisher.test", "p.adjust", "pchisq", "pnorm", "qnorm", "quantile", "rbinom", "rchisq", "sd", "var", "as.dist", "hclust")

importFrom("CompQuadForm", "davies")
importFrom("stringr","str_pad", "str_length")

S3method(equivalentGOProfiles, GOProfileHtest)
S3method(equivalentGOProfiles, ExpandedGOProfile)

S3method(ngenes, numeric)
S3method(ngenes, matrix)
S3method(ngenes, BasicGOProfile)
S3method(ngenes, ExpandedGOProfile)

S3method(fisherGOProfiles, numeric)
S3method(fisherGOProfiles, matrix)
S3method(fisherGOProfiles, BasicGOProfile)
S3method(fisherGOProfiles, ExpandedGOProfile)

S3method(contractedProfile, ExpandedGOProfile)

S3method(equivClust2pdf,equivClust)
S3method(equivClust2pdf,iterEquivClust)