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MsBackendRawFileReader

Spectra MsBackend for Thermo Fisher Scientific's New RawFileReader

https://github.com/fgcz/msbackendrawfilereader

Science Score: 49.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • ○
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ✓
    DOI references
    Found 6 DOI reference(s) in README
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    3 of 6 committers (50.0%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (8.9%) to scientific vocabulary

Keywords from Contributors

mass-spectrometry metabolomics proteomics bioconductor-package gene grna-sequence genomics ontology immune-repertoire sequencing
Last synced: 7 months ago · JSON representation

Repository

Spectra MsBackend for Thermo Fisher Scientific's New RawFileReader

Basic Info
Statistics
  • Stars: 6
  • Watchers: 5
  • Forks: 2
  • Open Issues: 9
  • Releases: 0
Created almost 7 years ago · Last pushed over 1 year ago
Metadata Files
Readme

README.md

Project Status: WIP – Initial development is in progress, but there has not yet been a stable, usable release suitable for the public. JPR JPR

MsBackendRawFileReader

Provides an alternative MsBackend to Spectra through the rawrr package. Ultimately this backend will allow direct access to spectral data logged in ThermoFischer Scientific .raw files using accessor functions defined in the Spectra package (on-disk backend).

Details of the backend concept are outlined in https://github.com/rformassspectrometry/Spectra/blob/master/man/MsBackend.Rd

Install

Please follow the install instructions provided through

https://bioconductor.org/packages/MsBackendRawFileReader/

Goal

Integration of rawDiag and rawrr into the RforMassSpectrometry Spectra ecosystem.

R4MS arch

see also https://github.com/Bioconductor/Contributions/issues/1886

Owner

  • Name: Functional Genomics Center UZH|ETH Zurich
  • Login: fgcz
  • Kind: organization
  • Email: protinf@fgcz.ethz.ch
  • Location: Switzerland

proteome informatics FGCZ

GitHub Events

Total
Last Year

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 170
  • Total Committers: 6
  • Avg Commits per committer: 28.333
  • Development Distribution Score (DDS): 0.253
Past Year
  • Commits: 15
  • Committers: 4
  • Avg Commits per committer: 3.75
  • Development Distribution Score (DDS): 0.6
Top Committers
Name Email Commits
Christian Panse cp@f****h 127
Christian Panse c****e 27
Tobias Kockmann t****n@f****h 5
RogerGinBer 4****r 5
Nitesh Turaga n****a@g****m 4
J Wokaty j****y@s****u 2
Committer Domains (Top 20 + Academic)
fgcz.ethz.ch: 2 sph.cuny.edu: 1

Issues and Pull Requests

Last synced: 7 months ago

All Time
  • Total issues: 19
  • Total pull requests: 4
  • Average time to close issues: 12 months
  • Average time to close pull requests: 3 months
  • Total issue authors: 7
  • Total pull request authors: 3
  • Average comments per issue: 3.05
  • Average comments per pull request: 1.5
  • Merged pull requests: 3
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 1
  • Average time to close issues: N/A
  • Average time to close pull requests: about 20 hours
  • Issue authors: 0
  • Pull request authors: 1
  • Average comments per issue: 0
  • Average comments per pull request: 0.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • cpanse (9)
  • tobiasko (3)
  • jorainer (3)
  • RogerGinBer (1)
  • breidan (1)
  • rcastelo (1)
  • lgatto (1)
Pull Request Authors
  • jorainer (4)
  • RogerGinBer (1)
  • cpanse (1)
Top Labels
Issue Labels
enhancement (3) help wanted (1) question (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 6,820 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 5
  • Total maintainers: 1
bioconductor.org: MsBackendRawFileReader

Mass Spectrometry Backend for Reading Thermo Fisher Scientific raw Files

  • Versions: 5
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 6,820 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.0%
Forks count: 15.3%
Stargazers count: 19.5%
Average: 25.1%
Downloads: 90.6%
Maintainers (1)
cp@fgcz.ethz.ch
Last synced: 7 months ago

Dependencies

DESCRIPTION cran
  • R >= 4.1 depends
  • Spectra >= 1.5.8 depends
  • methods * depends
  • BiocParallel * imports
  • IRanges * imports
  • MsCoreUtils * imports
  • S4Vectors * imports
  • rawrr >= 1.3.6 imports
  • utils * imports
  • BiocStyle >= 2.5 suggests
  • ExperimentHub * suggests
  • MsBackendMgf * suggests
  • knitr * suggests
  • lattice * suggests
  • mzR * suggests
  • protViz >= 0.7 suggests
  • rmarkdown * suggests
  • tartare >= 1.5 suggests
  • testthat * suggests