ABPkgBuilder	ABPkgBuilder
baseFile	pubRepo-class
baseFile,pubRepo-method	pubRepo-class
baseFile<-	pubRepo-class
baseFile<-,pubRepo-method	pubRepo-class
chrLocPkgBuilder	chrLocPkgBuilder
cols2Env	cols2Env
createEmptyDPkg	ABPkgBuilder
downloadData	pubRepo-class
downloadData,pubRepo-method	pubRepo-class
escapeLatexChr	writeManPage
fileMuncher	fileMuncher
fileToXML	fileToXML
findChrLength	writeChrLength
findIDNPath	KEGG-class
findIDNPath,KEGG-method	KEGG-class
findNumCol	getYeastData
findYGChrLength	yeastPkgBuilder
formatABQCList	getDPStats
formatChrLoc	yeastAnn
formatGO	yeastAnn
formatName	writeManPage
GEO	GEO-class
GEO-class	GEO-class
getAllRdaName	writeManPage
getAllSrc	makeSrcInfo
getAllUrl	getSrcUrl
getAncestors	GOXMLParser
getBaseParsers	ABPkgBuilder
getBuild4Yeast	writeManPage
getChildNodes	GOXMLParser
getChrNum	chrLocPkgBuilder
getChroLocation	getChroLocation
getDate	getDPStats
getDetailV	SPPkgBuilder
getDirContent	ABPkgBuilder
getDPStats	getDPStats
getDSrc	writeManPage
getDsrc	writeManPage
getEIdNName	KEGGPkgBuilder
getEnvNames	SPPkgBuilder
getExample	writeManPage
getExten	map2LL
getFullIDName	map2LL
getGEOUrl	getSrcUrl
getGEOYeast	yeastAnn
getGOBuilt	getSrcBuilt
getGOGroupIDs	GOXMLParser
getGOUrl	getSrcUrl
getGPData	getChroLocation
getHGBuilt	getSrcBuilt
getHGUrl	getSrcUrl
getHomoPS	homoPkgBuilder
getIntIDMapping	homoPkgBuilder
getItem	writeManPage
getKEGGBuilt	getSrcBuilt
getKEGGFile	KEGGPkgBuilder
getKEGGIDNName	getKEGGIDNName
getKEGGOrgName	getKEGGIDNName
getKEGGUrl	getSrcUrl
getLL2IntID	homoPkgBuilder
getLLBuilt	getSrcBuilt
getLLPathMap	getKEGGIDNName
getLLUrl	getSrcUrl
getMultiColNames	ABPkgBuilder
getNoDup	resolveMaps
getOffspringNodes	GOXMLParser
getOrgName	map2LL
getParentNodes	GOXMLParser
getPBased	getDPStats
getProbe2SGD	yeastAnn
getProbeNum	getDPStats
getReverseMapping	map2LL
getSrcBuilt	getSrcBuilt
getSrcBuiltNRef	writeManPage
getSrcNBuilt	writeManPage
getSrcUrl	getSrcUrl
getStrand	GP-class
getStrand,GP-method	GP-class
getTopGOid	GOXMLParser
getTypeColNames	ABPkgBuilder
getUCSCBuilt	getSrcBuilt
getUCSCUrl	getSrcUrl
getUGBuilt	getSrcBuilt
getUGUrl	getSrcUrl
getUniColNames	ABPkgBuilder
getUnified	resolveMaps
getUrl4Org	map2LL
getUrlNBuilt	writeManPage
getVote	resolveMaps
getYeastData	getYeastData
getYGBuilt	getSrcBuilt
getYGUrl	getSrcUrl
GO	GO-class
GO-class	GO-class
GOPkgBuilder	GOPkgBuilder
GOXMLParser	GOXMLParser
GP	GP-class
GP-class	GP-class
gpLinkNGene	getChroLocation
hasDelimit	resolveMaps
homoPkgBuilder	homoPkgBuilder
homoPS-class	homoPS-class
isOneToOne	SPPkgBuilder
KEGG	KEGG-class
KEGG,KEGG-method	KEGG-class
KEGG-class	KEGG-class
KEGGPkgBuilder	KEGGPkgBuilder
key	SPPkgBuilder
LL	LL-class
LL-class	LL-class
loadFromUrl	loadFromUrl
makeSrcInfo	makeSrcInfo
map2LL	map2LL
mapGO2AllProbe	GOXMLParser
mapGO2Category	GOXMLParser
mapIntID	homoPkgBuilder
mapll2EC	getKEGGIDNName
mapLL2ECNPName	KEGG-class
mapLL2ECNPName,KEGG-method	KEGG-class
mapOrgs	homoPkgBuilder
mapPS	homoPkgBuilder
matchAll	cols2Env
matchOneRow	cols2Env
matchProbes	getDPStats
mergeRowByKey	fileMuncher
organism	UG-class
organism,UG-method	UG-class
organism<-	UG-class
organism<-,UG-method	UG-class
orgNameNCode	homoPS-class
parseData	pubRepo-class
parseData,pubRepo-method	pubRepo-class
parseEC	getKEGGIDNName
parser	pubRepo-class
parser,pubRepo-method	pubRepo-class
parser<-	pubRepo-class
parser<-,pubRepo-method	pubRepo-class
print.ABQCList	print.ABQCList
procHomoData	homoPkgBuilder
procYeastGeno	yeastAnn
ps	homoPS-class
ps,homoPS-method	homoPS-class
psLL	homoPS-class
psLL,homoPS-method	homoPS-class
psOrg	homoPS-class
psOrg,homoPS-method	homoPS-class
psType	homoPS-class
psType,homoPS-method	homoPS-class
psURL	homoPS-class
psURL,homoPS-method	homoPS-class
pubRepo	pubRepo-class
pubRepo-class	pubRepo-class
queryGEO	queryGEO
readBadData	getYeastData
readData	pubRepo-class
readData,GEO-method	GEO-class
readData,GO-method	GO-class
readData,pubRepo-method	pubRepo-class
readData,YG-method	YG-class
readURL	getSrcUrl
resolveMaps	resolveMaps
reverseMap4GO	map2LL
saveColSepData	map2LL
saveData2Env	map2LL
sourceURLs	sourceURLs
splitEntry	ABPkgBuilder
SPPkgBuilder	SPPkgBuilder
srcUrl	pubRepo-class
srcUrl,pubRepo-method	pubRepo-class
srcUrl<-	pubRepo-class
srcUrl<-,pubRepo-method	pubRepo-class
twoStepSplit	ABPkgBuilder
UG	UG-class
UG-class	UG-class
unifyMappings	unifyMappings
unzipFile	loadFromUrl
validateUrl	loadFromUrl
writeAccessory	writeManPage
writeChrLength	writeChrLength
writeDescription	writeManPage
writeFun	writeManPage
writeMan4Fun	writeManPage
writeMan4QC	writeManPage
writeManPage	writeManPage
writeOrganism	writeChrLength
writeRdaNMan	homoPkgBuilder
writeREADME	writeManPage
writeXMLHeader	writeXMLHeader
writeZZZ	writeManPage
yeastAnn	yeastAnn
yeastPkgBuilder	yeastPkgBuilder
YG	YG-class
YG-class	YG-class
