ncats/RaMP-DB
RaMP (Relational Database of Metabolomic Pathways)

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ncats/RaMP-DB: RaMP (Relational Database of Metabolomic Pathways)
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API

API for ncats/RaMP-DB
RaMP (Relational Database of Metabolomic Pathways)

Global functions
.RaMP Source code
.dbcon Source code
.dbname Source code
.get_local_db_version_list Source code
.get_ramp_db Source code
.is_version_in_remote_lfs Source code
.valid_ramp_database Source code
.version_from_db_file Source code
FilterFishersResults Man page Source code
RaMP Man page Source code
add_adjusted_stats Source code
adjusted_stats Source code
assertDBparamIsRight Source code
bhCorrect Source code
buildAnalyteOverlapPerRxnLevelUpsetDataframe Source code
buildCataNetworkDataframe Source code
buildChemicalClassDataframe Source code
buildFrequencyTables Source code
buildPropertyList Source code
buildReactionClassesSunburstDataframe Source code
buildSimpleQuery Source code
checkIdPrefixes Source code
checkReactionInputIds Source code
chemicalClassEnrichment Man page Source code
chemicalClassSurvey Man page Source code
cleanup Source code
combineStringLists Source code
createRaMPInput Man page
dbHasAnalyteCommonName Source code
dbHasPathawyDuplicatesTable Source code
dbHasPathwaySimilarityTable Source code
dbHasTable Source code
filterEnrichResults Man page Source code
filterPathwaysByAnalyteCount Source code
findCluster Man page Source code
findDuplicatePathways Source code
findVersionChanges Source code
find_duplicate_pathways Source code
fix_invalid_stats Source code
formatListAsString Source code
getAllMetaboliteClassesQuery Source code
getAnalyteCountsForPathwaysQuery Source code
getAnalyteFromPathway Man page Source code
getAnalyteIntersectsQuery Source code
getAnalytePathwaysWithOntologyQuery Source code
getAnalytesFromOntologyQuery Source code
getAnalytesFromPathwaysQuery Source code
getChemClass Man page Source code
getChemPropsForMetabolitesQuery Source code
getChemicalClassFromSourceIDsQuery Source code
getChemicalClassRampIdsConn Source code
getChemicalClassRampIdsFullPopConn Source code
getChemicalProperties Man page Source code
getClassesForAnalytesQuery Source code
getCountOfAnalytesInECReactionsQuery Source code
getCurrentRaMPSourceDBVersions Man page Source code
getCurrentRaMPVersion Man page Source code
getCurrentSourceVersionQuery Source code
getCustomPathwayFromAnalyte Source code
getEntityCountsFromSourceDBs Man page Source code
getFunctionMetadata Source code
getGeneIDTypesQuery Source code
getInfoForIDsQuery Source code
getInfoFromTableQuery Source code
getLegacyRdata Source code
getLegacyRdataQuery Source code
getMetaFromOnto Man page Source code
getMetabChemClass Man page Source code
getMetabClassDataSources Source code
getMetabClassTypes Man page Source code
getMetaboliteClassSourcesQuery Source code
getMetaboliteClassTypesQuery Source code
getMetaboliteClassesForTypeQuery Source code
getMetaboliteCountsForClassesQuery Source code
getMetaboliteIDTypesQuery Source code
getMetaboliteSourceIdsForOntologyQuery Source code
getMetaboliteWithOntologyCountQuery Source code
getMetabolitesForOntologyQuery Source code
getMetabolitesForOntologyQueryOld Source code
getOntoFromMeta Man page Source code
getOntologies Man page Source code
getParameterInfo Source code
getPathwayFromAnalyte Man page Source code
getPathwayFromSourceIdQuery Source code
getPathwayNameList Man page Source code
getPathwayNamesQuery Source code
getPathwayOverlapBlobsQuery Source code
getPathwaysForAnalytesQuery Source code
getPrefixesFromAnalytes Man page Source code
getRaMPAnalyteIntersections Man page Source code
getRaMPInfoFromAnalytes Source code
getRaMPVersionQuery Source code
getRampIDsAndSourcesForPathwaysQuery Source code
getRampIdsForPathwaysQuery Source code
getRampSourceInfoFromAnalyteIDs Source code
getReactionClassStats Source code
getReactionClassStatsOnAnalytes Source code
getReactionClassStatsQuery Source code
getReactionClassesForAnalytes Man page Source code
getReactionDetails Man page Source code
getReactionDetailsQuery Source code
getReactionParticipantCounts Source code
getReactionParticipants Man page Source code
getReactionRheaURLs Source code
getReactionSourceIdsFromReactionQuery Source code
getReactionsForAnalytes Man page Source code
getReactionsForAnalytesQuery Source code
getRheaAnalyteReactionAssociations Man page Source code
getRheaEnzymesAndTransportersForMetabolites Source code
getRheaMetabolitesForProteins Source code
getSimMatrixFromFullMatrix Source code
getSimMatrixFromSparseData Source code
getSourceDataForAnalyteNamesQuery Source code
getSourceInfoForAnalyteIDsQuery Source code
getSourceInfoFromSourceIDsQuery Source code
getSynonymsForAnalyteQuery Source code
getSynonymsForSynonymQuery Source code
getTotalFoundInCategories Source code
get_remote_db_version_list Man page Source code
handleRenamedParameter Source code
listAvailableRaMPDbVersions Man page Source code
listRaMPVersions Man page Source code
listToQueryString Source code
parseListArgument Source code
pathwayResultsPlot Man page Source code
plotAnalyteOverlapPerRxnLevel Man page Source code
plotCataNetwork Man page Source code
plotChemicalClass Man page Source code
plotOntologyEnrichmentResults Man page Source code
plotPathwayResults Man page Source code
plotReactionClasses Man page Source code
printVersionChanges Source code
queryReport Source code
rampFastCata Man page Source code
rampFastPathFromSource Source code
rampFindClassInfoFromSourceId Source code
rampFindSourceFromId Source code
rampFindSourceRampId Source code
rampFindSynonymFromSynonym Source code
removeLocalRampDB Man page Source code
rheaRxnPartnersFromGeneIDsQuery Source code
rheaRxnPartnersFromGeneIDsQueryOld Source code
rheaRxnPartnersFromMetIDsQuery Source code
rheaRxnPartnersFromMetIDsQueryOld Source code
runCombinedFisherTest Man page Source code
runEnrichChemClass Man page Source code
runEnrichOntologies Man page Source code
runEnrichPathways Man page Source code
runEnrichReactionClass Man page Source code
runFisherReaction Source code
runFisherTest Source code
runQuery Man page Source code
rxnGeneParticipantsQuery Source code
rxnGeneParticipantsQueryOld Source code
rxnMetParticipantsQuery Source code
rxnMetParticipantsQueryOld Source code
rxnPartnersFromGeneIDsQuery Source code
rxnPartnersFromGeneIDsQueryOld Source code
rxnPartnersFromGeneNamesQuery Source code
rxnPartnersFromGeneNamesQueryOld Source code
rxnPartnersFromMetIDsQuery Source code
rxnPartnersFromMetIDsQueryOld Source code
rxnPartnersFromMetNamesQuery Source code
rxnPartnersFromMetNamesQueryOld Source code
rxnTransportQuery Source code
segregateDataBySource Source code
setupLegacyRdataCache Source code
setupVersionSupport Source code
show Man page
show,RaMP-method Man page
supportsCommonName Source code
supportsPathwayDuplicates Source code
supportsPathwaySimilarity Source code
writeFishersResults Man page Source code
writePathwaysToCSV Man page Source code
write_FishersResults Man page Source code
ncats/RaMP-DB documentation built on June 10, 2025, 10:50 a.m.

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