Package: MsDataHub 1.7.2

Laurent Gatto

MsDataHub: Mass Spectrometry Data on ExperimentHub

The MsDataHub package uses the ExperimentHub infrastructure to distribute raw mass spectrometry data files, peptide spectrum matches or quantitative data from proteomics and metabolomics experiments.

Authors:Laurent Gatto [aut, cre], Kristina Gomoryova [ctb], Johannes Rainer [aut]

MsDataHub_1.7.2.tar.gz
MsDataHub_1.7.2.zip(r-4.5)MsDataHub_1.7.2.zip(r-4.4)MsDataHub_1.7.2.zip(r-4.3)
MsDataHub_1.7.2.tgz(r-4.5-any)MsDataHub_1.7.2.tgz(r-4.4-any)MsDataHub_1.7.2.tgz(r-4.3-any)
MsDataHub_1.7.2.tar.gz(r-4.5-noble)MsDataHub_1.7.2.tar.gz(r-4.4-noble)
MsDataHub_1.7.2.tgz(r-4.4-emscripten)MsDataHub_1.7.2.tgz(r-4.3-emscripten)
MsDataHub.pdf |MsDataHub.html✨
MsDataHub/json (API)
NEWS

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

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

Pkgdown site:https://rformassspectrometry.github.io

On BioConductor:MsDataHub-1.7.0(bioc 3.21)MsDataHub-1.6.0(bioc 3.20)

experimenthubsoftwaremassspectrometryproteomicsmetabolomicsbioconductordatamass-spectrometry

4.95 score 1 stars 2 scripts 180 downloads 15 exports 59 dependencies

Last updated 1 days agofrom:b459a135a6. Checks:8 OK. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 22 2025
R-4.5-winOKFeb 22 2025
R-4.5-macOKFeb 22 2025
R-4.5-linuxOKFeb 22 2025
R-4.4-winOKFeb 22 2025
R-4.4-macOKFeb 22 2025
R-4.3-winOKFeb 22 2025
R-4.3-macOKFeb 22 2025

Exports:Ai2025_aCMs_report.tsvAi2025_iCMs_report.tsvbenchmarkingDIA.tsvcptac_a_b_c_peptides.txtcptac_a_b_peptides.txtcptac_peptides.txtko15.CDFMsDataHubPestMix1_DDA.mzMLPestMix1_SWATH.mzMLReport.Derks2022.plexDIA.tsvTMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.20141210.mzidTMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.20141210.mzML.gzX20171016_POOL_POS_1_105.134.mzMLX20171016_POOL_POS_3_105.134.mzML

Dependencies:AnnotationDbiAnnotationHubaskpassBiobaseBiocFileCacheBiocGenericsBiocManagerBiocVersionBiostringsbitbit64blobcachemclicpp11crayoncurlDBIdbplyrdplyrExperimentHubfansifastmapfilelockgenericsGenomeInfoDbGenomeInfoDbDatagluehttrIRangesjsonliteKEGGRESTlifecyclemagrittrmemoisemimeopensslpillarpkgconfigplogrpngpurrrR6rappdirsrlangRSQLiteS4VectorsstringistringrsystibbletidyrtidyselectUCSC.utilsutf8vctrswithrXVectoryaml

Mass Spectrometry Data on ExperimentHub

Laurent Gatto

Rendered fromMsDataHub.Rmdusingknitr::rmarkdownon Feb 22 2025.

Last update: 2025-02-19
Started: 2022-11-27

Readme and manuals

Help Manual

Help pageTopics
Ai et al (2025) single-cell dataAi2025 Ai2025_aCMs_report.tsv Ai2025_iCMs_report.tsv
DIA benchmarking databenchmarkingDIA benchmarkingDIA.tsv
MS data in CDF formatcdf ko15.CDF
CPTAC label-free datacptac cptac_a_b_c_peptides.txt cptac_a_b_peptides.txt cptac_peptides.txt
All MsDataHub datasetsMsDataHub
PXD000001 Proteomics DataPXD000001 TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzid TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzML.gz TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.20141210.mzid TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01.20141210.mzML.gz
Derks 2022 plexDIA dataReport.Derks2022.plexDIA Report.Derks2022.plexDIA.tsv
AB Sciex LC-MS data files20171016_POOL_POS_1_105-134.mzML 20171016_POOL_POS_3_105-134.mzML sciex X20171016_POOL_POS_1_105.134.mzML X20171016_POOL_POS_3_105.134.mzML
Triple TOF SWATH DataPestMix1_DDA.mzML PestMix1_SWATH.mzML TripleTOF