/usr/lib/R/site-library/annotate/help/AnIndex is in r-bioc-annotate 1.56.1+dfsg-1.
This file is owned by root:root, with mode 0o644.
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abstText,pubMedAbst-method pubMedAbst-class
ACC2homology LL2homology
accessionToUID accessionToUID
ACCNUMStats ACCNUMStats
allValidKeys isValidkey
annotate-defunct annotate-defunct
annPkgName annPkgName
aqListGOIDs aqListGOIDs
articleTitle pubMedAbst-class
articleTitle,pubMedAbst-method pubMedAbst-class
authors pubMedAbst-class
authors,pubMedAbst-method pubMedAbst-class
blastSequences blastSequences
buildChromLocation buildChromLocation
buildPubMedAbst buildPubMedAbst
checkArgs findNeighbors
chrCats chrCats
chromInfo chromLocation-class
chromInfo,chromLocation-method chromLocation-class
chromLengths chromLocation-class
chromLengths,chromLocation-method chromLocation-class
chromLocation chromLocation-class
chromLocation-class chromLocation-class
chromLocs chromLocation-class
chromLocs,chromLocation-method chromLocation-class
chromNames chromLocation-class
chromNames,chromLocation-method chromLocation-class
clearRepository setRepository
compatibleVersions compatibleVersions
createLLChrCats chrCats
createMAPIncMat chrCats
dataSource chromLocation-class
dataSource,chromLocation-method chromLocation-class
dropECode dropECode
entrezGeneByID entrezGeneByID
entrezGeneQuery entrezGeneQuery
fileName HTMLPage-class
fileName,HTMLPage-method HTMLPage-class
filterGOByOntology filterGOByOntology
findChr4LL findNeighbors
findNeighbors findNeighbors
FramedHTMLPage HTMLPage-class
FramedHTMLPage,HTMLPage-method HTMLPage-class
FramedHTMLPage-class HTMLPage-class
genbank genbank
genelocator annotate-defunct
geneSymbols chromLocation-class
geneSymbols,chromLocation-method chromLocation-class
getAnnMap getAnnMap
getBoundary findNeighbors
getCells getTDRows
getEG getSYMBOL
getEvidence getEvidence
getGI getSeq4Acc
getGO getSYMBOL
getGOChildren getGOTerm
getGOdesc getSYMBOL
getGOOntology getGOTerm
getGOParents getGOTerm
getGOTerm getGOTerm
getGPLNames readGEOAnn
getLL getSYMBOL
getOntology getOntology
getOrgNameNCode mapOrgs
getPMID getSYMBOL
getPMInfo getPMInfo
getQuery4Affy getTDRows
getQuery4EN getTDRows
getQuery4ENSEMBL getTDRows
getQuery4FB getTDRows
getQuery4GB getTDRows
getQuery4LL annotate-defunct
getQuery4OMIM getTDRows
getQuery4SP getTDRows
getQuery4TR getTDRows
getQuery4UG getTDRows
getQueryLink getTDRows
getRepositories setRepository
getSAGEFileInfo readGEOAnn
getSAGEGPL readGEOAnn
getSEQ getSeq4Acc
getSYMBOL getSYMBOL
getTDRows getTDRows
getUniqAnnItem getSYMBOL
getValidChr findNeighbors
GO2heatmap GO2heatmap
GOmnplot GOmnplot
hasGOannote hasGOannote
hgByChroms hgByChroms
hgCLengths hgCLengths
HGID2homology LL2homology
hgu95Achroloc hgu95Achroloc
hgu95Achrom hgu95Achrom
hgu95All hgu95All
hgu95AProbLocs hgu95AProbLocs
hgu95Asym hgu95Asym
homoACC homoData-class
homoACC,homoData-method homoData-class
homoData homoData-class
homoData-class homoData-class
homoHGID homoData-class
homoHGID,homoData-method homoData-class
homoLL homoData-class
homoLL,homoData-method homoData-class
homoOrg homoData-class
homoOrg,homoData-method homoData-class
homoPS homoData-class
homoPS,homoData-method homoData-class
homoType homoData-class
homoType,homoData-method homoData-class
homoURL homoData-class
homoURL,homoData-method homoData-class
HTMLPage HTMLPage-class
htmlpage htmlpage
HTMLPage,HTMLPage-method HTMLPage-class
HTMLPage-class HTMLPage-class
initialize,FramedHTMLPage-method HTMLPage-class
isValidKey isValidkey
journal pubMedAbst-class
journal,pubMedAbst-method pubMedAbst-class
KEGG2heatmap GO2heatmap
KEGG2heatmap,character,eSet,character-method GO2heatmap
KEGG2heatmap,character,matrix,character-method GO2heatmap
KEGGmnplot GOmnplot
KEGGmnplot,character,eSet,character-method GOmnplot
KEGGmnplot,character,matrix,character-method GOmnplot
LL2homology LL2homology
lookUp getSYMBOL
mainPage HTMLPage-class
mainPage,FramedHTMLPage-method HTMLPage-class
mainPage,HTMLPage-method HTMLPage-class
makeAnchor makeAnchor
mapOrgs mapOrgs
nChrom chromLocation-class
nChrom,chromLocation-method chromLocation-class
neighborGeneFinder annotate-defunct
organism organism
organism,character-method organism
organism,chromLocation-method chromLocation-class
orgNameNCode homoData-class
p2LL p2LL
pageText HTMLPage-class
pageText,HTMLPage-method HTMLPage-class
pageTitle HTMLPage-class
pageTitle,HTMLPage-method HTMLPage-class
pm.abstGrep pm.abstGrep
pm.getabst pm.getabst
pm.titles pm.titles
pmAbst2HTML pmAbst2HTML
pmid pubMedAbst-class
pmid,pubMedAbst-method pubMedAbst-class
pmid2MIAME pmid2MIAME
PMIDAmat PMIDAmat
pmidQuery pmidQuery
probesByLL annotate-defunct
probesToChrom chromLocation-class
probesToChrom,chromLocation-method chromLocation-class
pubDate pubMedAbst-class
pubDate,pubMedAbst-method pubMedAbst-class
pubmed pubmed
pubMedAbst pubMedAbst-class
pubMedAbst,pubMedAbst-method pubMedAbst-class
pubMedAbst-class pubMedAbst-class
PWAmat PWAmat
readGEOAnn readGEOAnn
readIDNAcc readGEOAnn
readUrl readGEOAnn
serializeDataPkgEnvs serializeEnv
serializeEnv serializeEnv
setRepository setRepository
show,chromLocation-method chromLocation-class
show,FramedHTMLPage-method HTMLPage-class
show,homoData-method homoData-class
show,HTMLPage-method HTMLPage-class
show,pubMedAbst-method pubMedAbst-class
sidePage HTMLPage-class
sidePage,FramedHTMLPage-method HTMLPage-class
sidePage,HTMLPage-method HTMLPage-class
toFile HTMLPage-class
toFile,FramedHTMLPage-method HTMLPage-class
toFile,HTMLPage-method HTMLPage-class
topPage HTMLPage-class
topPage,FramedHTMLPage-method HTMLPage-class
topPage,HTMLPage-method HTMLPage-class
UniGeneQuery UniGeneQuery
updateSymbolsToValidKeys updateSymbolsToValidKeys
usedChromGenes usedChromGenes
weightByConfi findNeighbors
whatACC ACCNUMStats
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