Package: MsBackendMetaboLights 1.1.0

Johannes Rainer

MsBackendMetaboLights: Retrieve Mass Spectrometry Data from MetaboLights

MetaboLights is one of the main public repositories for storage of metabolomics experiments, which includes analysis results as well as raw data. The MsBackendMetaboLights package provides functionality to retrieve and represent mass spectrometry (MS) data from MetaboLights. Data files are downloaded and cached locally avoiding repetitive downloads. MS data from metabolomics experiments can thus be directly and seamlessly integrated into R-based analysis workflows with the Spectra and MsBackendMetaboLights package.

Authors:Johannes Rainer [aut, cre], Philippine Louail [aut]

MsBackendMetaboLights_1.1.0.tar.gz
MsBackendMetaboLights_1.1.0.zip(r-4.5)MsBackendMetaboLights_1.1.0.zip(r-4.4)MsBackendMetaboLights_1.1.0.zip(r-4.3)
MsBackendMetaboLights_1.1.0.tgz(r-4.4-any)MsBackendMetaboLights_1.1.0.tgz(r-4.3-any)
MsBackendMetaboLights_1.1.0.tar.gz(r-4.5-noble)MsBackendMetaboLights_1.1.0.tar.gz(r-4.4-noble)
MsBackendMetaboLights_1.1.0.tgz(r-4.4-emscripten)MsBackendMetaboLights_1.1.0.tgz(r-4.3-emscripten)
MsBackendMetaboLights.pdf |MsBackendMetaboLights.html✨
MsBackendMetaboLights/json (API)

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

Peer review:

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

On BioConductor:MsBackendMetaboLights-0.99.1(bioc 3.20)

infrastructuremassspectrometrymetabolomicsdataimportproteomicsmass-spectrometrymetabolomics-data

4.40 score 1 stars 7 scripts 9 exports 60 dependencies

Last updated 2 days agofrom:36596b183e. Checks:OK: 1 ERROR: 6. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 30 2024
R-4.5-winERROROct 30 2024
R-4.5-linuxERROROct 30 2024
R-4.4-winERROROct 30 2024
R-4.4-macERROROct 30 2024
R-4.3-winERROROct 30 2024
R-4.3-macERROROct 30 2024

Exports:backendInitializebackendMergebackendRequiredSpectraVariablesMsBackendMetaboLightsmtbls_cached_data_filesmtbls_ftp_pathmtbls_list_filesmtbls_syncmtbls_sync_data_files

Dependencies:askpassBHBiocFileCacheBiocGenericsBiocParallelbitbit64blobcachemcliclueclustercodetoolscpp11curlDBIdbplyrdplyrfansifastmapfilelockformatRfsfutile.loggerfutile.optionsgenericsgluehttrIRangesjsonlitelambda.rlifecyclemagrittrMASSmemoiseMetaboCoreUtilsmimeMsCoreUtilsopensslpillarpkgconfigplogrProtGenericspurrrR6RcpprlangRSQLiteS4VectorssnowSpectrastringistringrsystibbletidyrtidyselectutf8vctrswithr

Retrieve and Use Mass Spectrometry Data from MetaboLights

Rendered fromMsBackendMetaboLights.Rmdusingknitr::rmarkdownon Oct 30 2024.

Last update: 2024-10-21
Started: 2024-09-07

Readme and manuals

Help Manual

Help pageTopics
Utility functions for the MetaboLights repositoryMetaboLights-utils mtbls_cached_data_files mtbls_ftp_path mtbls_list_files mtbls_sync_data_files
MsBackend representing MS data from MetaboLightsbackendInitialize,MsBackendMetaboLights-method backendMerge,MsBackendMetaboLights-method backendRequiredSpectraVariables,MsBackendMetaboLights-method MsBackendMetaboLights MsBackendMetaboLights-class mtbls_sync