Package: MsBackendSql 1.13.0

Johannes Rainer

MsBackendSql: SQL-based Mass Spectrometry Data Backend

SQL-based mass spectrometry (MS) data backend supporting also storange and handling of very large data sets. Objects from this package are supposed to be used with the Spectra Bioconductor package. Through the MsBackendSql with its minimal memory footprint, this package thus provides an alternative MS data representation for very large or remote MS data sets.

Authors:Johannes Rainer [aut, cre], Chong Tang [ctb], Laurent Gatto [ctb]

MsBackendSql_1.13.0.tar.gz
MsBackendSql_1.13.0.zip(r-4.7-any)MsBackendSql_1.13.0.zip(r-4.6-any)MsBackendSql_1.13.0.zip(r-4.5-any)
MsBackendSql_1.13.0.tgz(r-4.6-any)MsBackendSql_1.13.0.tgz(r-4.5-any)
MsBackendSql_1.13.0.tar.gz(r-4.7-any)MsBackendSql_1.13.0.tar.gz(r-4.6-any)
MsBackendSql_1.13.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
MsBackendSql/json (API)

# Install 'MsBackendSql' in R:
install.packages('MsBackendSql', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/rformassspectrometry/msbackendsql/issues

On BioConductor:MsBackendSql-1.13.0(bioc 3.24)MsBackendSql-1.12.0(bioc 3.23)

infrastructuremassspectrometrymetabolomicsdataimportproteomics

4.51 score 4 stars 40 scripts 478 downloads 30 exports 37 dependencies

Last updated from:596d363d16. Checks:9 ERROR, 1 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksERROR147
linux-develERROR291
source / vignettesERROR235
linux-releaseERROR298
macos-releaseERROR103
macos-oldrelERROR168
windows-develERROR164
windows-releaseERROR163
windows-oldrelERROR166
wasm-releaseOK132

Exports:backendInitializebackendMergecentroidedcreateMsBackendSqlDatabasedataStorageextractByIndexfilterDataOriginfilterMsLevelfilterPrecursorMzRangefilterPrecursorMzValuesfilterRtintensityintensity<-longFormMsBackendOfflineSqlMsBackendSqlmzmz<-peaksDatapeaksVariablesprecScanNumresetshowsmoothedspectraDataspectraNamesspectraNames<-supportsSetBackendticuniqueMsLevels

Dependencies:BHBiocGenericsBiocParallelcliclueclustercodetoolscpp11crayondata.tableDBIfastmatchformatRfsfutile.loggerfutile.optionsgenericsgluehmsIRangeslambda.rlifecycleMASSMetaboCoreUtilsMsCoreUtilspkgconfigprettyunitsprogressProtGenericsR6RcpprlangS4VectorssnowSpectrastringivctrs

Readme and manuals

Help Manual

Help pageTopics
SQL-based MS backend without active database connectionbackendInitialize,MsBackendOfflineSql-method MsBackendOfflineSql MsBackendOfflineSql-class
'Spectra' MS backend storing data in a SQL database$<-,MsBackendSql-method backendBpparam,MsBackendSql-method backendInitialize,MsBackendSql-method backendMerge,MsBackendOfflineSql-method backendMerge,MsBackendSql-method centroided,MsBackendSql-method createMsBackendSqlDatabase dataStorage,MsBackendOfflineSql-method dataStorage,MsBackendSql-method dbconn,MsBackendOfflineSql-method dbconn,MsBackendSql-method extractByIndex,MsBackendSql,ANY-method filterDataOrigin,MsBackendOfflineSql-method filterDataOrigin,MsBackendSql-method filterMsLevel,MsBackendOfflineSql-method filterMsLevel,MsBackendSql-method filterPrecursorMzRange,MsBackendOfflineSql-method filterPrecursorMzRange,MsBackendSql-method filterPrecursorMzValues,MsBackendOfflineSql-method filterPrecursorMzValues,MsBackendSql-method filterRt,MsBackendOfflineSql-method filterRt,MsBackendSql-method intensity,MsBackendOfflineSql-method intensity,MsBackendSql-method intensity<-,MsBackendSql-method longForm,MsBackendOfflineSql-method longForm,MsBackendSql-method MsBackendSql MsBackendSql-class mz,MsBackendOfflineSql-method mz,MsBackendSql-method mz<-,MsBackendSql-method peaksData,MsBackendOfflineSql-method peaksData,MsBackendSql-method peaksVariables,MsBackendOfflineSql-method peaksVariables,MsBackendSql-method precScanNum,MsBackendSql-method reset,MsBackendOfflineSql-method reset,MsBackendSql-method show,MsBackendOfflineSql-method show,MsBackendSql-method smoothed,MsBackendSql-method spectraData,MsBackendOfflineSql-method spectraData,MsBackendSql-method spectraNames,MsBackendSql-method spectraNames<-,MsBackendSql-method supportsSetBackend,MsBackendOfflineSql-method supportsSetBackend,MsBackendSql-method tic,MsBackendOfflineSql-method tic,MsBackendSql-method uniqueMsLevels,MsBackendOfflineSql-method uniqueMsLevels,MsBackendSql-method [,MsBackendSql-method