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metagene2

https://github.com/arnauddroitlab/metagene2

Science Score: 10.0%

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
  • ○
    Academic publication links
  • ✓
    Committers with academic emails
    1 of 25 committers (4.0%) from academic institutions
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (9.1%) to scientific vocabulary

Keywords from Contributors

bioconductor-package genomics gene bioconductor proteomics rnaseq bioinformatics derfinder edger deseq2
Last synced: 11 months ago · JSON representation

Repository

Basic Info
  • Host: GitHub
  • Owner: ArnaudDroitLab
  • Language: R
  • Default Branch: master
  • Size: 23.3 MB
Statistics
  • Stars: 4
  • Watchers: 4
  • Forks: 0
  • Open Issues: 12
  • Releases: 0
Fork of CharlesJB/metagene
Created almost 8 years ago · Last pushed over 3 years ago

https://github.com/ArnaudDroitLab/metagene2/blob/master/ 

metagene2: A package to produce metagene plots
========================================================


[![Travis build status](https://travis-ci.org/ArnaudDroitLab/metagene2.svg?branch=master)](https://travis-ci.org/ArnaudDroitLab/metagene2)
[![codecov](https://codecov.io/gh/ArnaudDroitLab/metagene2/branch/master/graph/badge.svg)](https://codecov.io/gh/ArnaudDroitLab/metagene2)
[![Bioconductor Time](http://bioconductor.org/shields/years-in-bioc/metagene2.svg)](http://bioconductor.org/packages/release/bioc/html/metagene.html "Bioconductor status")



This package produces metagene plots to compare the behavior of DNA-interacting proteins at selected groups of genes/features. Bam files are used to increase the resolution. Multiple combination of group of bam files and/or group of genomic regions can be compared in a single analysis. Bootstraping analysis is used to compare the groups and locate regions with statistically different enrichment profiles.

## Bioconductor Package ##

metagene2 is an official package of [Bioconductor](http://bioconductor.org/). The current release and devel builds can be downloaded from their website:
 - [Current release](http://www.bioconductor.org/packages/release/bioc/html/metagene2.html)
 - [devel](http://www.bioconductor.org/packages/devel/bioc/html/metagene2.html)

## Documentation ##

The official [release](http://www.bioconductor.org/packages/release/bioc/html/metagene2.html)
and [devel](http://www.bioconductor.org/packages/devel/bioc/html/metagene2.html) documentation
of the package is available from Bioconductor. We also maintain a mirror of the devel documentation 
on the [package website on github.io](https://arnauddroitlab.github.io/metagene2/).


## Authors ##

[Eric Fournier](fournier.eric.2@crchudequebec.ulaval.ca), 
[Charles Joly Beauparlant](http://ca.linkedin.com/pub/charles-joly-beauparlant/89/491/3b3),
[Cedric Lippens](lippens.cedric@protonmail),
[Arnaud Droit](http://ca.linkedin.com/in/drarnaud).

See
[Arnaud Droit Lab](http://bioinformatique.ulaval.ca/home/ "Arnaud Droit Lab")
website.

## Maintainer ##

[Eric Fournier](fournier.eric.2@crchudequebec.ulaval.ca)

## License ##

This package and the underlying metagene code are distributed under the
Artistic license 2.0. You are free to use and redistribute this software.

For more information on Artistic 2.0 License see
[this webpage](http://opensource.org/licenses/Artistic-2.0)

## Bugs/Feature requests ##

If you have any bugs or feature requests,
[let us know](https://github.com/ArnaudDroitLab/metagene2/issues).

Owner

  • Name: AD Lab
  • Login: ArnaudDroitLab
  • Kind: organization
  • Location: Quebec City

GitHub Events

Total
Last Year

Committers

Last synced: almost 3 years ago

All Time
  • Total Commits: 935
  • Total Committers: 25
  • Avg Commits per committer: 37.4
  • Development Distribution Score (DDS): 0.678
Past Year
  • Commits: 3
  • Committers: 2
  • Avg Commits per committer: 1.5
  • Development Distribution Score (DDS): 0.333
Top Committers
Name Email Commits
Charles Joly Beauparlant C****t@c****a 301
Charles Beauparlant c****t@c****a 109
lippensc l****c@g****m 107
Eric Fournier e****r@f****a 103
ericfournier2 e****2@y****a 101
c.beauparlant c****t@b****8 88
adeschen a****n@h****m 24
Astrid Deschenes a****s@c****a 23
d.tenenbaum d****m@b****8 16
Nitesh Turaga n****a@g****m 14
Dan Tenenbaum d****a@f****g 10
Eric Fournier F****2@c****a 10
Astrid Deschenes a****n 6
Herve Pages h****s@f****g 5
Bioconductor Git-SVN Bridge b****c@b****g 3
Hervé Pagès h****s@f****g 3
J Wokaty j****y@s****u 2
hpages@fhcrc.org h****s@f****g@b****8 2
vobencha v****n@r****g 2
cjbparlant c****t@l****a 1
cjbparlant c****t@l****) 1
m.carlson m****n@b****8 1
Hervé Pagès h****b@g****m 1
Eric Fournier e****2 1
Marc Carlson m****n@f****g 1
Committer Domains (Top 20 + Academic)
fhcrc.org: 4 crchul.ulaval.ca: 2 ls33.(none): 1 ls31.genome.ulaval.ca: 1 roswellpark.org: 1 sph.cuny.edu: 1 fredhutch.org: 1 bioconductor.org: 1 crchudequebec.ulaval.ca: 1 crchuq.ulaval.ca: 1 yahoo.ca: 1 fsaa.ulaval.ca: 1

Issues and Pull Requests

Last synced: about 1 year ago

All Time
  • Total issues: 39
  • Total pull requests: 0
  • Average time to close issues: 2 months
  • Average time to close pull requests: N/A
  • Total issue authors: 13
  • Total pull request authors: 0
  • Average comments per issue: 1.79
  • Average comments per pull request: 0
  • Merged pull requests: 0
  • 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
  • ericfournier2 (23)
  • aliciagallego (4)
  • ymkng (2)
  • kaltinel (1)
  • CharlesJB (1)
  • bumproo (1)
  • MolyWang (1)
  • anksi (1)
  • twoshoes (1)
  • lshep (1)
  • yuhongning (1)
  • jvanbelzen (1)
  • chrmarinaccio (1)
Pull Request Authors
Top Labels
Issue Labels
enhancement (12) bug (12) documentation (3)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • bioconductor 11,680 total
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 5
  • Total maintainers: 1
bioconductor.org: metagene2

A package to produce metagene plots

  • Versions: 5
  • Dependent Packages: 0
  • Dependent Repositories: 0
  • Downloads: 11,680 Total
Rankings
Dependent repos count: 0.0%
Dependent packages count: 0.0%
Forks count: 18.4%
Stargazers count: 19.5%
Average: 21.5%
Downloads: 69.7%
Maintainers (1)
ericfournier2@yahoo.ca
Last synced: 11 months ago