Introduction | Installation | Importing MS/MS data from MassBank files | Accessing the MassBank MySQL database | Pre-requisites | Direct access to the MassBank database | Session information
Package: MsBackendMassbank 1.21.0
RforMassSpectrometry Package Maintainer
MsBackendMassbank: Mass Spectrometry Data Backend for MassBank record Files
Mass spectrometry (MS) data backend supporting import and export of MS/MS library spectra from MassBank record files. Different backends are available that allow handling of data in plain MassBank text file format or allow also to interact directly with MassBank SQL databases. Objects from this package are supposed to be used with the Spectra Bioconductor package. This package thus adds MassBank support to the Spectra package.
Authors:
MsBackendMassbank_1.21.0.tar.gz
MsBackendMassbank_1.21.0.zip(r-4.7)MsBackendMassbank_1.21.0.zip(r-4.6)MsBackendMassbank_1.21.0.zip(r-4.5)
MsBackendMassbank_1.21.0.tgz(r-4.6-any)MsBackendMassbank_1.21.0.tgz(r-4.5-any)
MsBackendMassbank_1.21.0.tar.gz(r-4.7-any)MsBackendMassbank_1.21.0.tar.gz(r-4.6-any)
MsBackendMassbank_1.21.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
MsBackendMassbank/json (API)
| # Install 'MsBackendMassbank' in R: |
| install.packages('MsBackendMassbank', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/rformassspectrometry/msbackendmassbank/issues
On BioConductor:MsBackendMassbank-1.21.0(bioc 3.24)MsBackendMassbank-1.20.0(bioc 3.23)
infrastructuremassspectrometrymetabolomicsdataimportmassbankspectra
Last updated from:f0c382ba70. Checks:8 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 161 | ||
| linux-devel-x86_64 | NOTE | 228 | ||
| source / vignettes | OK | 209 | ||
| linux-release-x86_64 | NOTE | 216 | ||
| macos-release-arm64 | NOTE | 158 | ||
| macos-oldrel-arm64 | NOTE | 101 | ||
| windows-devel | NOTE | 175 | ||
| windows-release | NOTE | 177 | ||
| windows-oldrel | NOTE | 192 | ||
| wasm-release | OK | 162 |
Exports:backendInitializecompoundsdataStorageexportextractByIndexintensity<-metaDataBlocksMsBackendMassbankMsBackendMassbankSqlmz<-peaksDataprecScanNumresetspectraDataspectraNamesspectraNames<-spectraVariableMappingtic
Dependencies:BHBiocGenericsBiocParallelclueclustercodetoolscpp11data.tableDBIformatRfsfutile.loggerfutile.optionsgenericsIRangeslambda.rMASSMetaboCoreUtilsMsCoreUtilsProtGenericsRcppS4VectorssnowSpectra
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Metadata blocks to be read | metaDataBlocks |
| MS data backend for mgf files | backendInitialize,MsBackendMassbank-method export,MsBackendMassbank-method MsBackendMassbank MsBackendMassbank-class spectraVariableMapping,MsBackendMassbank-method |
| MS backend accessing the MassBank MySQL database | $<-,MsBackendMassbankSql-method backendBpparam,MsBackendMassbankSql-method backendInitialize,MsBackendMassbankSql-method compounds compounds,MsBackendMassbankSql-method compounds,Spectra-method dataStorage,MsBackendMassbankSql-method extractByIndex,MsBackendMassbankSql,ANY-method intensity<-,MsBackendMassbankSql-method MsBackendMassbankSql MsBackendMassbankSql-class mz<-,MsBackendMassbankSql-method peaksData,MsBackendMassbankSql-method precScanNum,MsBackendMassbankSql-method reset,MsBackendMassbankSql-method spectraData,MsBackendMassbankSql-method spectraNames,MsBackendMassbankSql-method spectraNames<-,MsBackendMassbankSql-method tic,MsBackendMassbankSql-method [,MsBackendMassbankSql-method |