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MsFeatures

Functionality for Mass Spectrometry Features.

https://github.com/rformassspectrometry/msfeatures

Science Score: 36.0%

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
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    1 of 4 committers (25.0%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (13.7%) to scientific vocabulary

Keywords from Contributors

bioconductor-package
Last synced: 10 months ago · JSON representation

Repository

Functionality for Mass Spectrometry Features.

Basic Info
Statistics
  • Stars: 7
  • Watchers: 3
  • Forks: 2
  • Open Issues: 4
  • Releases: 0
Created about 6 years ago · Last pushed about 1 year ago
Metadata Files
Readme Changelog

README.md

MsFeatures - Functionality for Mass Spectrometry Features

Project Status: Active - The project has reached a stable, usable state and is being actively developed. R-CMD-check-bioc codecov license years in bioc Ranking by downloads build release build devel

The MsFeatures package defines functionality for Mass Spectrometry (MS) features. These features are characterized by their specific mass-to-charge ration m/z and eventually a retention time rt (for LC-MS features).

This package defines thus basic concepts and functions for such MS features which includes grouping of (LC-MS) features based on their properties, such as retention time (coeluting compounds), or correlation of signals across samples. Provided functions are for base data types and core MS data representations (such as Chromatogram objects from the MSnbase package). Implementation of feature grouping methods for more specific data objects, such as LC-MS preprocessing results stored in XCMSnExp objects from the xcms package are implemented in the respective packages.

See the package homepage for more information.

Installation

The package can be installed with

r install.packages("BiocManager") BiocManager::install("MsFeatures")

Contributions

Contributions are highly welcome and should follow the contribution guidelines. Also, please check the coding style guidelines in the RforMassSpectrometry vignette.

Owner

  • Name: RforMassSpectrometry
  • Login: rformassspectrometry
  • Kind: organization
  • Email: maintainer@rformassspectrometry.org

R packages for mass spectrometry

GitHub Events

Total
  • Issues event: 2
  • Issue comment event: 13
  • Member event: 1
  • Push event: 4
  • Pull request review comment event: 1
  • Pull request review event: 3
  • Pull request event: 1
Last Year
  • Issues event: 2
  • Issue comment event: 13
  • Member event: 1
  • Push event: 4
  • Pull request review comment event: 1
  • Pull request review event: 3
  • Pull request event: 1

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 72
  • Total Committers: 4
  • Avg Commits per committer: 18.0
  • Development Distribution Score (DDS): 0.125
Past Year
  • Commits: 8
  • Committers: 2
  • Avg Commits per committer: 4.0
  • Development Distribution Score (DDS): 0.25
Top Committers
Name Email Commits
jorainer j****r@g****m 63
Nitesh Turaga n****a@g****m 6
J Wokaty j****y@s****u 2
Johannes Rainer 5****r 1
Committer Domains (Top 20 + Academic)
sph.cuny.edu: 1

Issues and Pull Requests

Last synced: 11 months ago

All Time
  • Total issues: 7
  • Total pull requests: 8
  • Average time to close issues: about 1 month
  • Average time to close pull requests: 25 days
  • Total issue authors: 3
  • Total pull request authors: 2
  • Average comments per issue: 4.57
  • Average comments per pull request: 2.25
  • Merged pull requests: 7
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 1
  • Pull requests: 1
  • Average time to close issues: about 2 months
  • Average time to close pull requests: 18 days
  • Issue authors: 1
  • Pull request authors: 1
  • Average comments per issue: 5.0
  • Average comments per pull request: 14.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • jorainer (5)
  • JohanLassen (1)
  • eterlova (1)
Pull Request Authors
  • jorainer (7)
  • JohanLassen (2)
Top Labels
Issue Labels
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 85,701 total
  • Total dependent packages: 2
  • Total dependent repositories: 0
  • Total versions: 5
  • Total maintainers: 1
bioconductor.org: MsFeatures

Functionality for Mass Spectrometry Features

  • Versions: 5
  • Dependent Packages: 2
  • Dependent Repositories: 0
  • Downloads: 85,701 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.0%
Average: 10.3%
Stargazers count: 12.3%
Downloads: 19.5%
Forks count: 19.8%
Maintainers (1)
Johannes.Rainer@eurac.edu
Last synced: 11 months ago

Dependencies

DESCRIPTION cran
  • R >= 4.0 depends
  • MsCoreUtils * imports
  • ProtGenerics >= 1.23.5 imports
  • SummarizedExperiment * imports
  • methods * imports
  • stats * imports
  • BiocStyle * suggests
  • knitr * suggests
  • pheatmap * suggests
  • rmarkdown * suggests
  • roxygen2 * suggests
  • testthat * suggests
.github/workflows/check-bioc.yml actions
  • actions/cache v2 composite
  • actions/checkout v2 composite
  • actions/upload-artifact master composite
  • r-lib/actions/setup-pandoc v2 composite
  • r-lib/actions/setup-r v2 composite