Package: MsIO 0.0.8
Johannes Rainer
MsIO: Serializing and restoring/importing mass spectrometry data objects
The serialization mechanism of R allows to save and load R data objects in a binary format, that can however not be read by other programming languages or software. The MsIO package supports serializing and restoring or importing mass spectrometry data objects to and from language agnostic file formats. A variety of different file types, including HDF5 and JSON-based formats defined by the Bioconductor *alabaster* package are supported. The file type can be defined and configured through a second argument `param` of the export/import methods.
Authors:
MsIO_0.0.8.tar.gz
MsIO_0.0.8.zip(r-4.5)MsIO_0.0.8.zip(r-4.4)
MsIO_0.0.8.tgz(r-4.4-any)
MsIO_0.0.8.tar.gz(r-4.5-noble)MsIO_0.0.8.tar.gz(r-4.4-noble)
MsIO_0.0.8.tgz(r-4.4-emscripten)
MsIO.pdf |MsIO.html✨
MsIO/json (API)
| # Install 'MsIO' in R: |
| install.packages('MsIO', repos = c('https://rformassspectrometry.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/rformassspectrometry/msio/issues
infrastructuremassspectrometrymetabolomicsdataimportproteomicsmass-spectrometry
Last updated 22 days agofrom:aa0527e6cd. Checks:OK: 1 NOTE: 1 ERROR: 3. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 30 2024 |
| R-4.5-win | ERROR | Oct 31 2024 |
| R-4.5-linux | NOTE | Oct 30 2024 |
| R-4.4-win | ERROR | Oct 31 2024 |
| R-4.4-mac | ERROR | Oct 31 2024 |
Exports:AlabasterParamMetaboLightsParammzTabParamPlainTextParamreadMsObjectreadObjectsaveMsObjectsaveObject
Dependencies:alabaster.basealabaster.schemasBiocGenericsclueclustercurljsonlitejsonvalidateMASSMsCoreUtilsProtGenericsRcpprhdf5rhdf5filtersRhdf5libS4VectorsV8
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Store MS data objects using the alabaster framework | AlabasterParam readMsObject,MsBackendMetaboLights,AlabasterParam-method readMsObject,MsBackendMzR,AlabasterParam-method readMsObject,MsExperiment,AlabasterParam-method readMsObject,Spectra,AlabasterParam-method readMsObject,XcmsExperiment,AlabasterParam-method readObject saveMsObject,MsBackendMetaboLights,AlabasterParam-method saveMsObject,MsBackendMzR,AlabasterParam-method saveMsObject,MsExperiment,AlabasterParam-method saveMsObject,Spectra,AlabasterParam-method saveMsObject,XcmsExperiment,AlabasterParam-method saveObject,MsBackendMetaboLights-method saveObject,MsBackendMzR-method saveObject,MsExperiment-method saveObject,MsExperimentFiles-method saveObject,Spectra-method saveObject,XcmsExperiment-method |
| Load content from a MetaboLights study | MetaboLightsParam readMsObject,MsExperiment,MetaboLightsParam-method |
| Store xcms preprocessing results to a file in mzTab-M format. | mzTabParam saveMsObject,XcmsExperiment,mzTabParam-method |
| Store contents of MS objects as plain text files | PlainTextParam readMsObject,MsBackendMetaboLights,PlainTextParam-method readMsObject,MsBackendMzR,PlainTextParam-method readMsObject,MsExperiment,PlainTextParam-method readMsObject,Spectra,PlainTextParam-method readMsObject,XcmsExperiment,PlainTextParam-method saveMsObject,MsBackendMzR,PlainTextParam-method saveMsObject,MsExperiment,PlainTextParam-method saveMsObject,Spectra,PlainTextParam-method saveMsObject,XcmsExperiment,PlainTextParam-method |
| Save and load MS data objects to and from different file formats | readMsObject readMsObject,MsBackend,ANY-method saveMsObject saveMsObject,MsBackend,ANY-method |
