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aroma.affymetrix

🔬 R package: Analysis of Large Affymetrix Microarray Data Sets

https://github.com/henrikbengtsson/aroma.affymetrix

Science Score: 23.0%

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

  • â—‹
    CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • â—‹
    .zenodo.json file
  • â—‹
    DOI references
  • â—‹
    Academic publication links
  • ✓
    Committers with academic emails
    1 of 5 committers (20.0%) from academic institutions
  • â—‹
    Institutional organization owner
  • â—‹
    JOSS paper metadata
  • â—‹
    Scientific vocabulary similarity
    Low similarity (9.3%) to scientific vocabulary

Keywords

affymetrix analysis copy-number dna expression hpc large-scale microarray notebook package r reproducibility rna
Last synced: 6 months ago · JSON representation

Repository

🔬 R package: Analysis of Large Affymetrix Microarray Data Sets

Basic Info
Statistics
  • Stars: 11
  • Watchers: 5
  • Forks: 3
  • Open Issues: 7
  • Releases: 0
Topics
affymetrix analysis copy-number dna expression hpc large-scale microarray notebook package r reproducibility rna
Created over 11 years ago · Last pushed 6 months ago
Metadata Files
Readme Changelog

README.md

CRAN check status R CMD check status Coverage Status

aroma.affymetrix: Analysis of Large Affymetrix Microarray Data Sets

Please see The Aroma Project for more details on how to use the package and for joining the user forum where you can ask questions.

Installation

R package aroma.affymetrix is available on CRAN. The easiest to install the package and all of its dependencies (of which some are on Bioconductor), use r source('http://callr.org/install#aroma.affymetrix')

Owner

  • Name: Henrik Bengtsson
  • Login: HenrikBengtsson
  • Kind: user
  • Company: UCSF

Assoc Professor. R Foundation. R Consortium. Many R packages, e.g. future & matrixStats.

GitHub Events

Total
  • Issues event: 2
  • Watch event: 1
  • Issue comment event: 3
  • Push event: 6
  • Create event: 1
Last Year
  • Issues event: 2
  • Watch event: 1
  • Issue comment event: 3
  • Push event: 6
  • Create event: 1

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 853
  • Total Committers: 5
  • Avg Commits per committer: 170.6
  • Development Distribution Score (DDS): 0.005
Past Year
  • Commits: 1
  • Committers: 1
  • Avg Commits per committer: 1.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Henrik Bengtsson hb@a****g 849
Henrik Bengtsson h****n@g****m 1
Mark Robinson m****a@g****m 1
Pierre Neuvial p****l@g****r 1
gara-z g****a@g****m 1
Committer Domains (Top 20 + Academic)
genopole.cnrs.fr: 1 aroma-project.org: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 42
  • Total pull requests: 1
  • Average time to close issues: about 2 months
  • Average time to close pull requests: about 1 hour
  • Total issue authors: 7
  • Total pull request authors: 1
  • Average comments per issue: 1.07
  • Average comments per pull request: 1.0
  • Merged pull requests: 1
  • Bot issues: 0
  • Bot pull requests: 0
Past Year
  • Issues: 0
  • Pull requests: 0
  • Average time to close issues: N/A
  • Average time to close pull requests: N/A
  • Issue authors: 0
  • Pull request authors: 0
  • Average comments per issue: 0
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • Bot issues: 0
  • Bot pull requests: 0
View more stats
Top Authors
Issue Authors
  • HenrikBengtsson (38)
  • zhangjsyeah (1)
  • liuzhe93 (1)
  • louievdl (1)
  • ThomasGro (1)
  • DesmondSmith (1)
  • MimoriK (1)
Pull Request Authors
  • gara-z (1)
Top Labels
Issue Labels
enhancement (17) bug (7) question (3) help wanted (3) CRAN Policy (2)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • cran 815 last-month
  • Total docker downloads: 2,047
  • Total dependent packages: 2
  • Total dependent repositories: 14
  • Total versions: 34
  • Total maintainers: 1
cran.r-project.org: aroma.affymetrix

Analysis of Large Affymetrix Microarray Data Sets

  • Versions: 34
  • Dependent Packages: 2
  • Dependent Repositories: 14
  • Downloads: 815 Last month
  • Docker Downloads: 2,047
Rankings
Dependent repos count: 7.7%
Dependent packages count: 13.7%
Forks count: 14.2%
Average: 14.4%
Docker downloads count: 16.0%
Downloads: 16.6%
Stargazers count: 18.3%
Maintainers (1)
henrikb@braju.com
Last synced: 6 months ago

Dependencies

DESCRIPTION cran
  • R >= 3.2.0 depends
  • R.utils >= 2.9.0 depends
  • aroma.core >= 3.2.0 depends
  • MASS * imports
  • R.cache >= 0.14.0 imports
  • R.devices >= 2.16.1 imports
  • R.filesets >= 2.13.0 imports
  • R.methodsS3 >= 1.7.1 imports
  • R.oo >= 1.23.0 imports
  • aroma.apd >= 0.6.0 imports
  • future * imports
  • listenv * imports
  • matrixStats >= 0.55.0 imports
  • methods * imports
  • splines * imports
  • AffymetrixDataTestFiles * suggests
  • Biobase >= 2.28.0 suggests
  • BiocGenerics >= 0.14.0 suggests
  • DBI >= 1.0.0 suggests
  • RColorBrewer >= 1.1 suggests
  • affxparser >= 1.40.0 suggests
  • affy >= 1.46.0 suggests
  • affyPLM >= 1.44.0 suggests
  • aroma.light >= 2.4.0 suggests
  • dChipIO >= 0.1.1 suggests
  • gcrma >= 2.40.0 suggests
  • gsmoothr >= 0.1.7 suggests
  • limma >= 3.24.1 suggests
  • oligo >= 1.32.0 suggests
  • oligoClasses >= 1.30.0 suggests
  • pdInfoBuilder >= 1.32.0 suggests
  • preprocessCore >= 1.28.0 suggests