Files in PAnnBuilder
Protein annotation data package builder
DESCRIPTION
NAMESPACE
inst/scripts/refseqParser
inst/scripts/refseqParser_DB
inst/scripts/spParser
inst/scripts/pfamNameParser
inst/scripts/equalParser
inst/scripts/ipiParser
inst/scripts/dbsublocParser
inst/scripts/blastParser
inst/scripts/mergeParser
inst/scripts/mppiParser
inst/scripts/spParser_DB
inst/scripts/ipiParser_DB
inst/scripts/pfamParser
inst/scripts/interproParser
inst/templates/PKGNAMEORTHOLOG.Rd
inst/templates/PKGNAMENAME2INTERPRO.Rd
inst/templates/PKGNAMEREFSEQPAIR.Rd
inst/templates/PKGNAMEEND.Rd
inst/templates/PKGNAMEIPISQ.Rd
inst/templates/PKGNAMEGENEID.Rd
inst/templates/PKGNAMEINTERPRO.Rd
inst/templates/PKGNAMEGO2CHILDREN.Rd
inst/templates/PKGNAMESP2IPI.Rd
inst/templates/PKGNAMEGN.Rd
inst/templates/PKGNAMESUBCELL.Rd
inst/templates/PKGNAMEINTERPPRO2UP.Rd
inst/templates/PKGNAMETREMBL2GI.Rd
inst/templates/PKGNAMEUPID2INTERPRO.Rd
inst/templates/PKGNAMEGISQ.Rd
inst/templates/PKGNAMEGO2SPID.Rd
inst/templates/PKGNAMEDDIENTRY.Rd
inst/templates/PKGNAMESUBCELLULAR2SPAC.Rd
inst/templates/PKGNAMEPEPMAP.Rd
inst/templates/PKGNAMEPDB.Rd
inst/templates/PKGNAMEUPID.Rd
inst/templates/PKGNAMESUBCELLULAR.Rd
inst/templates/PKGNAMESPID2PFAM.Rd
inst/templates/PKGNAMEGENEPAIR.Rd
inst/templates/PKGNAMEPATH2GI.Rd
inst/templates/PKGNAMECHR.Rd
inst/templates/PKGNAMESUBCELLULAR2SPID.Rd
inst/templates/PKGNAMEGO2OFFSPRING.Rd
inst/templates/PKGNAMEUNIGENE.Rd
inst/templates/PKGNAMEGO2ANCESTOR.Rd
inst/templates/PKGNAMEORIENT.Rd
inst/templates/PKGNAMESYMBOL.Rd
inst/templates/PKGNAMESPAC2PFAM.Rd
inst/templates/PKGNAMEPFAM2DE.Rd
inst/templates/PKGNAMEGI2TREMBL.Rd
inst/templates/PKGNAMETREMBLSQ.Rd
inst/templates/PKGNAMESP2GI.Rd
inst/templates/PKGNAMEGI.Rd
inst/templates/PKGNAMEGI2IPI.Rd
inst/templates/PKGNAMEPATHID2NAME.Rd
inst/templates/PKGNAMESPAC.Rd
inst/templates/PKGNAMEPROSITE.Rd
inst/templates/PKGNAMEPEPSQ.Rd
inst/templates/PKGNAMESPSQ.Rd
inst/templates/PKGNAMEPARAMETER.Rd
inst/templates/PKGNAMEPFAM2SP.Rd
inst/templates/PKGNAMEPATHNAME2ID.Rd
inst/templates/PKGNAMEKEGG2NAME.Rd
inst/templates/PKGNAMESPACs.Rd
inst/templates/PKGNAMESCOP2PARENT.Rd
inst/templates/PKGNAMEGO.Rd
inst/templates/PKGNAMEORGANISM.Rd
inst/templates/PKGNAMEKEGG.Rd
inst/templates/PKGNAMESPID.Rd
inst/templates/PKGNAMEPFAM.Rd
inst/templates/PKGNAMEREFSEQ.Rd
inst/templates/PKGNAMEGO2OBSOLETE.Rd
inst/templates/PKGNAMEGO2NAME.Rd
inst/templates/PKGNAMESP2TREMBL.Rd
inst/templates/PKGNAMEPDB2SCOP.Rd
inst/templates/PKGNAMETISSUE.Rd
inst/templates/PKGNAMEPATH2SPID.Rd
inst/templates/PKGNAMESPECIES.Rd
inst/templates/PKGNAMEINTERACTION.Rd
inst/templates/PKGNAMEUPACPAIR.Rd
inst/templates/PKGNAMEIPIACs.Rd
inst/templates/PKGNAMENAME2KEGG.Rd
inst/templates/PKGNAMETREMBL2IPI.Rd
inst/templates/PKGNAMEOMIM.Rd
inst/templates/PKGNAMEMW.Rd
inst/templates/PKGNAMEDISEASE.Rd
inst/templates/PKGNAMEGO2IPIID.Rd
inst/templates/PKGNAMEGO2PARENTS.Rd
inst/templates/PKGNAMEDE.Rd
inst/templates/PKGNAMESOURCE.Rd
inst/templates/PKGNAMEFUNCTION.Rd
inst/templates/PKGNAMEPFAM2NAME.Rd
inst/templates/PKGNAMESCOP2CHILDREN.Rd
inst/templates/PKGNAMEPPIENTRY.Rd
inst/templates/PKGNAMEUPAC.Rd
inst/templates/PKGNAMEGO2TERM.Rd
inst/templates/PKGNAMEUPPAIR.Rd
inst/templates/PKGNAMESCOP2DE.Rd
inst/templates/PKGNAMEHOMOLOGENE.Rd
inst/templates/PKGNAMESQ.Rd
inst/templates/PKGNAMESCOP2NAME.Rd
inst/templates/PKGNAMEGO2UPID.Rd
inst/templates/PKGNAMEBF2IPI.Rd
inst/templates/PKGNAMEPATH.Rd
inst/templates/PKGNAMEPTM2SITE.Rd
inst/templates/PKGNAMEBF.Rd
inst/templates/PKGNAMEGO2GI.Rd
inst/templates/PKGNAMESTART.Rd
inst/templates/PKGNAMELEN.Rd
inst/templates/PKGNAMENAME2PFAM.Rd
inst/templates/PKGNAMEPROTEINIDs.Rd
inst/templates/PKGNAMEDE2PFAM.Rd
inst/templates/PKGNAMECHROMOSOME.Rd
inst/templates/PKGNAMESCOP2TYPE.Rd
inst/templates/PKGNAMEIPI2GI.Rd
inst/templates/PKGNAMEKEY.Rd
inst/templates/PKGNAMEGI2SP.Rd
inst/templates/PKGNAMEEC.Rd
inst/templates/Anno.Rd
inst/templates/PKGNAMETAXID2NAME.Rd
inst/templates/PKGNAMEIPIAC.Rd
inst/templates/PKGNAMEINTERPRO2NAME.Rd
inst/templates/PKGNAMETREMBL2SP.Rd
inst/templates/PKGNAMEPFAMPAIR.Rd
inst/templates/PKGNAMESCOP2CLASSIFICATION.Rd
inst/templates/PKGNAMESCOP2PDB.Rd
inst/templates/PKGNAMEIPI2TREMBL.Rd
inst/templates/merge.Rd
inst/templates/PKGNAMEPTM.Rd
inst/templates/PKGNAMEPMID.Rd
inst/templates/PKGNAMEIPIID.Rd
inst/templates/PKGNAMENAME2TAXID.Rd
inst/templates/PKGNAMEPATH2IPIID.Rd
inst/templates/PKGNAMEIPI2SP.Rd
inst/templates/PSEQ_DB/zzz.R
inst/templates/PSEQ_DB/_dbconn.Rd
inst/templates/PSEQ_DB/NAMESPACE
inst/templates/PSEQ_DB/Anno.Rd
inst/templates/SCOP_DB/PDB2CL.Rd
inst/templates/SCOP_DB/TYPE.Rd
inst/templates/SCOP_DB/zzz.R
inst/templates/SCOP_DB/CLASSIFICATION.Rd
inst/templates/SCOP_DB/_dbconn.Rd
inst/templates/SCOP_DB/PDB2SP.Rd
inst/templates/SCOP_DB/PDB2FA.Rd
inst/templates/SCOP_DB/CHILDREN.Rd
inst/templates/SCOP_DB/PDB2PX.Rd
inst/templates/SCOP_DB/PDB2CF.Rd
inst/templates/SCOP_DB/PARENT.Rd
inst/templates/SCOP_DB/NAME.Rd
inst/templates/SCOP_DB/DE.Rd
inst/templates/SCOP_DB/MAPCOUNTS.Rd
inst/templates/SCOP_DB/NAMESPACE
inst/templates/SCOP_DB/PDB2DM.Rd
inst/templates/SCOP_DB/PDB2SF.Rd
inst/templates/SCOP_DB/Anno.Rd
inst/templates/HOMOLOGENE_DB/HOMOLOG2AC.Rd
inst/templates/HOMOLOGENE_DB/zzz.R
inst/templates/HOMOLOGENE_DB/_dbconn.Rd
inst/templates/HOMOLOGENE_DB/ORGANISM.Rd
inst/templates/HOMOLOGENE_DB/HOMOLOG.Rd
inst/templates/HOMOLOGENE_DB/HOMOLOG2GI.Rd
inst/templates/HOMOLOGENE_DB/MAPCOUNTS.Rd
inst/templates/HOMOLOGENE_DB/NAMESPACE
inst/templates/HOMOLOGENE_DB/Anno.Rd
inst/templates/HOMOLOGENE_DB/SYMBOL.Rd
inst/templates/HOMOLOGENE_DB/TAXID.Rd
inst/templates/GENEINT_DB/zzz.R
inst/templates/GENEINT_DB/_dbconn.Rd
inst/templates/GENEINT_DB/GGI.Rd
inst/templates/GENEINT_DB/MAPCOUNTS.Rd
inst/templates/GENEINT_DB/NAMESPACE
inst/templates/GENEINT_DB/Anno.Rd
inst/templates/GENEINT_DB/TAXID.Rd
inst/templates/INTACT_DB/zzz.R
inst/templates/INTACT_DB/_dbconn.Rd
inst/templates/INTACT_DB/PPI.Rd
inst/templates/INTACT_DB/MAPCOUNTS.Rd
inst/templates/INTACT_DB/NAMESPACE
inst/templates/INTACT_DB/Anno.Rd
inst/templates/INTACT_DB/TAXID.Rd
inst/templates/CROSS_DB/zzz.R
inst/templates/CROSS_DB/_dbconn.Rd
inst/templates/CROSS_DB/ORGANISM.Rd
inst/templates/CROSS_DB/SEQ.Rd
inst/templates/CROSS_DB/MATCH.Rd
inst/templates/CROSS_DB/MAPCOUNTS.Rd
inst/templates/CROSS_DB/NAMESPACE
inst/templates/CROSS_DB/Anno.Rd
inst/templates/PEPTIDEATLAS_DB/zzz.R
inst/templates/PEPTIDEATLAS_DB/PEP2CHR.Rd
inst/templates/PEPTIDEATLAS_DB/_dbconn.Rd
inst/templates/PEPTIDEATLAS_DB/PEP2PROTEIN.Rd
inst/templates/PEPTIDEATLAS_DB/SEQ.Rd
inst/templates/PEPTIDEATLAS_DB/MAPCOUNTS.Rd
inst/templates/PEPTIDEATLAS_DB/NAMESPACE
inst/templates/PEPTIDEATLAS_DB/Anno.Rd
inst/templates/REFSEQ_DB/REFSEQ.Rd
inst/templates/REFSEQ_DB/zzz.R
inst/templates/REFSEQ_DB/_dbconn.Rd
inst/templates/REFSEQ_DB/PATH.Rd
inst/templates/REFSEQ_DB/ORGANISM.Rd
inst/templates/REFSEQ_DB/GO.Rd
inst/templates/REFSEQ_DB/SEQ.Rd
inst/templates/REFSEQ_DB/KEGG.Rd
inst/templates/REFSEQ_DB/DE.Rd
inst/templates/REFSEQ_DB/MAPCOUNTS.Rd
inst/templates/REFSEQ_DB/NAMESPACE
inst/templates/REFSEQ_DB/Anno.Rd
inst/templates/REFSEQ_DB/SYMBOL.Rd
inst/templates/REFSEQ_DB/GENEID.Rd
inst/templates/GOA_DB/zzz.R
inst/templates/GOA_DB/_dbconn.Rd
inst/templates/GOA_DB/ORGANISM.Rd
inst/templates/GOA_DB/GO.Rd
inst/templates/GOA_DB/DE.Rd
inst/templates/GOA_DB/MAPCOUNTS.Rd
inst/templates/GOA_DB/NAMESPACE
inst/templates/GOA_DB/SPID.Rd
inst/templates/GOA_DB/Anno.Rd
inst/templates/SYSBODYFLUID_DB/zzz.R
inst/templates/SYSBODYFLUID_DB/PMID2BF.Rd
inst/templates/SYSBODYFLUID_DB/_dbconn.Rd
inst/templates/SYSBODYFLUID_DB/BF2IPI.Rd
inst/templates/SYSBODYFLUID_DB/PMID2TITLE.Rd
inst/templates/SYSBODYFLUID_DB/BF.Rd
inst/templates/SYSBODYFLUID_DB/ORGANISM.Rd
inst/templates/SYSBODYFLUID_DB/PMID2ENGINE.Rd
inst/templates/SYSBODYFLUID_DB/PMID2SAMPLE.Rd
inst/templates/SYSBODYFLUID_DB/MAPCOUNTS.Rd
inst/templates/SYSBODYFLUID_DB/NAMESPACE
inst/templates/SYSBODYFLUID_DB/PMID2PLATFORM.Rd
inst/templates/SYSBODYFLUID_DB/Anno.Rd
inst/templates/BACELLO_DB/zzz.R
inst/templates/BACELLO_DB/_dbconn.Rd
inst/templates/BACELLO_DB/SEQ.Rd
inst/templates/BACELLO_DB/MAPCOUNTS.Rd
inst/templates/BACELLO_DB/SUBCELL.Rd
inst/templates/BACELLO_DB/NAMESPACE
inst/templates/BACELLO_DB/Anno.Rd
inst/templates/INPARANOID_DB/zzz.R
inst/templates/INPARANOID_DB/_dbconn.Rd
inst/templates/INPARANOID_DB/ORGANISM.Rd
inst/templates/INPARANOID_DB/SEQ.Rd
inst/templates/INPARANOID_DB/MAPCOUNTS.Rd
inst/templates/INPARANOID_DB/NAMESPACE
inst/templates/INPARANOID_DB/Anno.Rd
inst/templates/INPARANOID_DB/ORTHOLOG.Rd
inst/templates/3DID_DB/zzz.R
inst/templates/3DID_DB/_dbconn.Rd
inst/templates/3DID_DB/DDI.Rd
inst/templates/3DID_DB/MAPCOUNTS.Rd
inst/templates/3DID_DB/NAMESPACE
inst/templates/3DID_DB/Anno.Rd
inst/templates/MPPI_DB/zzz.R
inst/templates/MPPI_DB/_dbconn.Rd
inst/templates/MPPI_DB/PPI.Rd
inst/templates/MPPI_DB/MAPCOUNTS.Rd
inst/templates/MPPI_DB/NAMESPACE
inst/templates/MPPI_DB/Anno.Rd
inst/templates/DOMINE_DB/zzz.R
inst/templates/DOMINE_DB/METHOD.Rd
inst/templates/DOMINE_DB/_dbconn.Rd
inst/templates/DOMINE_DB/DDI.Rd
inst/templates/DOMINE_DB/MAPCOUNTS.Rd
inst/templates/DOMINE_DB/NAMESPACE
inst/templates/DOMINE_DB/Anno.Rd
inst/templates/DNAME_DB/PATH2DE.Rd
inst/templates/DNAME_DB/zzz.R
inst/templates/DNAME_DB/_dbconn.Rd
inst/templates/DNAME_DB/INTERPRO2NAME.Rd
inst/templates/DNAME_DB/PFAM2NAME.Rd
inst/templates/DNAME_DB/PFAM2DE.Rd
inst/templates/DNAME_DB/MAPCOUNTS.Rd
inst/templates/DNAME_DB/TAXID2NAME.Rd
inst/templates/DNAME_DB/NAMESPACE
inst/templates/DNAME_DB/GO2NAME.Rd
inst/templates/DNAME_DB/Anno.Rd
inst/templates/DBSUBLOC_DB/zzz.R
inst/templates/DBSUBLOC_DB/_dbconn.Rd
inst/templates/DBSUBLOC_DB/ORGANISM.Rd
inst/templates/DBSUBLOC_DB/SEQ.Rd
inst/templates/DBSUBLOC_DB/DE.Rd
inst/templates/DBSUBLOC_DB/MAPCOUNTS.Rd
inst/templates/DBSUBLOC_DB/SUBCELL.Rd
inst/templates/DBSUBLOC_DB/NAMESPACE
inst/templates/DBSUBLOC_DB/Anno.Rd
inst/templates/SP_DB/SPACs.Rd
inst/templates/SP_DB/REFSEQ.Rd
inst/templates/SP_DB/INTERPRO.Rd
inst/templates/SP_DB/PMID.Rd
inst/templates/SP_DB/FUNCTION.Rd
inst/templates/SP_DB/GN.Rd
inst/templates/SP_DB/SPAC.Rd
inst/templates/SP_DB/zzz.R
inst/templates/SP_DB/PROSITE.Rd
inst/templates/SP_DB/_dbconn.Rd
inst/templates/SP_DB/DISEASE.Rd
inst/templates/SP_DB/UNIGENE.Rd
inst/templates/SP_DB/PATH.Rd
inst/templates/SP_DB/PDB.Rd
inst/templates/SP_DB/ORGANISM.Rd
inst/templates/SP_DB/MW.Rd
inst/templates/SP_DB/INT.Rd
inst/templates/SP_DB/GO.Rd
inst/templates/SP_DB/SEQ.Rd
inst/templates/SP_DB/KEGG.Rd
inst/templates/SP_DB/DE.Rd
inst/templates/SP_DB/MAPCOUNTS.Rd
inst/templates/SP_DB/SUBCELL.Rd
inst/templates/SP_DB/NAMESPACE
inst/templates/SP_DB/LEN.Rd
inst/templates/SP_DB/Anno.Rd
inst/templates/SP_DB/TISSUE.Rd
inst/templates/SP_DB/PFAM.Rd
inst/templates/SP_DB/SYMBOL.Rd
inst/templates/SP_DB/GENEID.Rd
inst/templates/IPI_DB/REFSEQ.Rd
inst/templates/IPI_DB/INTERPRO.Rd
inst/templates/IPI_DB/SPAC.Rd
inst/templates/IPI_DB/zzz.R
inst/templates/IPI_DB/PROSITE.Rd
inst/templates/IPI_DB/GI.Rd
inst/templates/IPI_DB/_dbconn.Rd
inst/templates/IPI_DB/UNIGENE.Rd
inst/templates/IPI_DB/PATH.Rd
inst/templates/IPI_DB/ORGANISM.Rd
inst/templates/IPI_DB/MW.Rd
inst/templates/IPI_DB/GO.Rd
inst/templates/IPI_DB/SEQ.Rd
inst/templates/IPI_DB/IPIACs.Rd
inst/templates/IPI_DB/KEGG.Rd
inst/templates/IPI_DB/DE.Rd
inst/templates/IPI_DB/MAPCOUNTS.Rd
inst/templates/IPI_DB/NAMESPACE
inst/templates/IPI_DB/LEN.Rd
inst/templates/IPI_DB/SPID.Rd
inst/templates/IPI_DB/Anno.Rd
inst/templates/IPI_DB/IPIAC.Rd
inst/templates/IPI_DB/PFAM.Rd
inst/templates/IPI_DB/SYMBOL.Rd
inst/templates/IPI_DB/GENEID.Rd
inst/templates/SYSPTM_DB/IDs.Rd
inst/templates/SYSPTM_DB/GN.Rd
inst/templates/SYSPTM_DB/zzz.R
inst/templates/SYSPTM_DB/PTMTYPE.Rd
inst/templates/SYSPTM_DB/_dbconn.Rd
inst/templates/SYSPTM_DB/ORGANISM.Rd
inst/templates/SYSPTM_DB/SEQ.Rd
inst/templates/SYSPTM_DB/DE.Rd
inst/templates/SYSPTM_DB/MAPCOUNTS.Rd
inst/templates/SYSPTM_DB/NAMESPACE
inst/templates/SYSPTM_DB/Anno.Rd
inst/templates/SYSPTM_DB/GENEID.Rd
inst/doc/PAnnBuilder.R
inst/doc/PAnnBuilder.Rnw
inst/doc/PAnnBuilder.pdf
inst/DBschemas/schemas_1.0/HOMOLOGENE_DB.sql
inst/DBschemas/schemas_1.0/SYSBODYFLUID_DB.sql
inst/DBschemas/schemas_1.0/DOMINE_DB.sql
inst/DBschemas/schemas_1.0/INTACT_DB.sql
inst/DBschemas/schemas_1.0/GENEINT_DB.sql
inst/DBschemas/schemas_1.0/3DID_DB.sql
inst/DBschemas/schemas_1.0/INPARANOID_DB.sql
inst/DBschemas/schemas_1.0/SCOP_DB.sql
inst/DBschemas/schemas_1.0/REFSEQ_DB.sql
inst/DBschemas/schemas_1.0/MPPI_DB.sql
inst/DBschemas/schemas_1.0/PEPTIDEALTAS_DB.sql
inst/DBschemas/schemas_1.0/DBSUBLOC.sql
inst/DBschemas/schemas_1.0/GOA_DB.sql
inst/DBschemas/schemas_1.0/SYSPTM_DB.sql
inst/DBschemas/schemas_1.0/DNAME_DB.sql
inst/DBschemas/schemas_1.0/SP_DB.sql
inst/DBschemas/schemas_1.0/CROSS_DB.sql
inst/DBschemas/schemas_1.0/IPI_DB.sql
inst/DBschemas/schemas_1.0/BACELLO_DB.sql
inst/extdata/query.example
vignettes/PAnnBuilder.bib
vignettes/fulltext.pdf
vignettes/PAnnBuilder.Rnw
R/makeLLDB.R
R/pBaseBuilder_DB.R
R/zzz.R
R/subcellBuilder_DB.R
R/PeptideAtlasBuilder_DB.R
R/mapCountsBuilder.R
R/getSrcUrl.R
R/loadFromUrl.R
R/processData.R
R/writeManPage.R
R/crossBuilder_DB.R
R/InParanoidBuilder_DB.R
R/dNameBuilder_DB.R
R/ptmBuilder_DB.R
R/createAnnObjs.R
R/scopBuilder_DB.R
R/initClasses.R
R/bfBuilder_DB.R
R/intBuilder_DB.R
R/GOABuilder_DB.R
R/pSeqBuilder_DB.R
R/HomoloGeneBuilder_DB.R
R/writeData_DB.R
man/intBuilder_DB.Rd
man/pBaseBuilder_DB.Rd
man/zzz.Rd
man/createAnnObjs.Rd
man/subcellBuilder_DB.Rd
man/crossBuilder_DB.Rd
man/makeLLDB.Rd
man/InParanoidBuilder_DB.Rd
man/PeptideAtlasBuilder_DB.Rd
man/loadFromUrl.Rd
man/pSeqBuilder_DB.Rd
man/getSrcUrl.Rd
man/writeData_DB.Rd
man/dNameBuilder_DB.Rd
man/ptmBuilder_DB.Rd
man/writeManPage.Rd
man/processData.Rd
man/GOABuilder_DB.Rd
man/HomoloGeneBuilder_DB.Rd
man/initClasses.Rd
man/bfBuilder_DB.Rd
man/scopBuilder_DB.Rd
build/vignette.rds
data/taxLists.txt
data/sourceURLs.txt
data/taxLists.R
data/descriptionInfo.txt
data/sourceURLs.R
data/descriptionInfo.R
