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categoryCompare

Github repo of the categoryCompare meta-analysis package

https://github.com/rmflight/categorycompare

Science Score: 13.0%

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

  • ○
    CITATION.cff file
  • ○
    codemeta.json file
  • ○
    .zenodo.json file
  • ✓
    DOI references
    Found 3 DOI reference(s) in README
  • ○
    Academic publication links
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (11.0%) to scientific vocabulary

Keywords

bioconductor r rstats

Keywords from Contributors

bioconductor-package core-package bioinformatics mirror pathway-analysis bioc gc-ms mass-spectrometry reproducibility hdf5
Last synced: 6 months ago · JSON representation

Repository

Github repo of the categoryCompare meta-analysis package

Basic Info
Statistics
  • Stars: 5
  • Watchers: 2
  • Forks: 0
  • Open Issues: 23
  • Releases: 0
Topics
bioconductor r rstats
Created almost 14 years ago · Last pushed almost 2 years ago
Metadata Files
Readme

readme.md

Bioconductor Time

Bioconductor Availability Bioconductor Downloads Bioconductor Commits Support posts

Build Status Bioconductor Release Build Bioconductor Devel Build

categoryCompare

A Bioconductor package for meta analysis of high-throughput datasets using enriched feature annotations instead of just the features themselves.

See the "Description" file for additional requirements.

Documentation

The Vignette provides a description of the thinking behind this package as well as a toy example for demonstration purposes.

Installation

Installation of this package from Github requires the devtools package.

r install.packages("devtools") library(devtools) install_github("categoryCompare", "rmflight")

Alternatively, you can install categoryCompare from Bioconductor itself.

r if (!requireNamespace("BiocManager", quietly=TRUE)) install.packages("BiocManager") BiocManager::install("categoryCompare")

Citation

Flight RM, Harrison BJ, Mohammad F, Bunge MB, Moon LDF, Petruska JC and Rouchka EC (2014). .CATEGORYCOMPARE, an analytical tool based on feature annotations. Frontiers in Genetics. link

Bug Reports / Issues

The official development site for categoryCompare is at https://github.com/rmflight/categoryCompare. There you may submit bug-reports / issues / comments to the developer.

Owner

  • Name: Robert M Flight
  • Login: rmflight
  • Kind: user
  • Location: Lexington, KY
  • Company: University of Kentucky

Data Parasite in the @MoseleyBioinformaticsLab who enjoys visualizing data and designing new methods to extract knowledge from it.

GitHub Events

Total
Last Year

Committers

Last synced: over 2 years ago

All Time
  • Total Commits: 91
  • Total Committers: 9
  • Avg Commits per committer: 10.111
  • Development Distribution Score (DDS): 0.626
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Robert M Flight r****9@g****m 34
Robert M Flight r****9@g****m 23
Dan Tenenbaum d****a@f****g 21
Herve Pages h****s@f****g 6
Hervé Pagès h****s@f****g 2
vobencha v****n@r****g 2
Martin Morgan m****n@f****g 1
Sonali Arora s****a@f****g 1
Valerie Obenchain v****a@f****g 1
Committer Domains (Top 20 + Academic)
fhcrc.org: 5 roswellpark.org: 1 fredhutch.org: 1

Issues and Pull Requests

Last synced: over 1 year ago

All Time
  • Total issues: 35
  • Total pull requests: 1
  • Average time to close issues: about 2 months
  • Average time to close pull requests: 26 minutes
  • Total issue authors: 1
  • Total pull request authors: 1
  • Average comments per issue: 0.71
  • Average comments per pull request: 0.0
  • 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
  • rmflight (35)
Pull Request Authors
  • rmflight (1)
Top Labels
Issue Labels
v2 (11) enhancement (5) mcc_poster (4) Urgent! (2) bug (2)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 29,229 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 5
  • Total maintainers: 1
bioconductor.org: categoryCompare

Meta-analysis of high-throughput experiments using feature annotations

  • Versions: 5
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 29,229 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.0%
Stargazers count: 12.3%
Average: 13.7%
Forks count: 19.8%
Downloads: 36.2%
Maintainers (1)
rflight79@gmail.com
Last synced: 6 months ago

Dependencies

DESCRIPTION cran
  • Biobase * depends
  • BiocGenerics >= 0.13.8 depends
  • R >= 2.10 depends
  • AnnotationDbi * imports
  • Category >= 2.33.1 imports
  • GOstats * imports
  • GSEABase * imports
  • RCy3 >= 1.99.29 imports
  • annotate * imports
  • colorspace * imports
  • grDevices * imports
  • graph * imports
  • hwriter * imports
  • methods * imports
  • utils * imports
  • GO.db * suggests
  • KEGG.db * suggests
  • affy * suggests
  • estrogen * suggests
  • genefilter * suggests
  • hgu95av2.db * suggests
  • knitr * suggests
  • limma * suggests
  • org.Hs.eg.db * suggests