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Open Source Science

https://github.com/biojulia/genomegraphs.jl

A modern genomics framework for julia

https://github.com/biojulia/genomegraphs.jl

Science Score: 23.0%

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
    Links to: zenodo.org
  • ○
    Committers with academic emails
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (15.5%) to scientific vocabulary

Keywords

bio bioinformatics bioinformatics-analysis biology genome-assembly genome-graph genome-sequencing genomes genomics julia

Keywords from Contributors

kmer file-format fastq-format fastq-files fastq fasta-format fasta-files fasta biological-sequences report
Last synced: 6 months ago · JSON representation

Repository

A modern genomics framework for julia

Basic Info
  • Host: GitHub
  • Owner: BioJulia
  • License: other
  • Language: Julia
  • Default Branch: master
  • Homepage: https://biojulia.dev
  • Size: 16.4 MB
Statistics
  • Stars: 71
  • Watchers: 15
  • Forks: 7
  • Open Issues: 1
  • Releases: 0
Topics
bio bioinformatics bioinformatics-analysis biology genome-assembly genome-graph genome-sequencing genomes genomics julia
Created about 7 years ago · Last pushed over 5 years ago
Metadata Files
Readme Funding License Codeowners

README.md

GenomeGraphs

Latest release MIT license DOI Stable documentation Pkg Status Chat

Description

GenomeGraphs provides a representation of sequence graphs. Such graphs represent genome assemblies and population graphs of genotypes/haplotypes and variation.

Installation

You can install GenomeGraphs from the julia REPL. Press ] to enter pkg mode again, and enter the following:

pkg> add GenomeGraphs

If you are interested in the cutting edge of the development, please check out the master branch to try new features before release.

Testing

GenomeGraphs is tested on Linux, OS X, and Windows, for the stable, LTS, and nightly builds of julia.

Latest build status:

Unit tests

Contributing

We appreciate contributions from users including reporting bugs, fixing issues, improving performance and adding new features.

Take a look at the contributing files detailed contributor and maintainer guidelines, and code of conduct.

Financial contributions

We also welcome financial contributions in full transparency on our open collective. Anyone can file an expense. If the expense makes sense for the development of the community, it will be "merged" in the ledger of our open collective by the core contributors and the person who filed the expense will be reimbursed.

Backers & Sponsors

Thank you to all our backers and sponsors!

Love our work and community? Become a backer.

backers

Does your company use BioJulia? Help keep BioJulia feature rich and healthy by sponsoring the project Your logo will show up here with a link to your website.

Questions?

If you have a question about contributing or using BioJulia software, come on over and chat to us on Gitter, or you can try the Bio category of the Julia discourse site.

Owner

  • Name: BioJulia
  • Login: BioJulia
  • Kind: organization

Bioinformatics and Computational Biology in Julia

GitHub Events

Total
  • Watch event: 4
Last Year
  • Watch event: 4

Committers

Last synced: 8 months ago

All Time
  • Total Commits: 45
  • Total Committers: 4
  • Avg Commits per committer: 11.25
  • Development Distribution Score (DDS): 0.289
Past Year
  • Commits: 0
  • Committers: 0
  • Avg Commits per committer: 0.0
  • Development Distribution Score (DDS): 0.0
Top Committers
Name Email Commits
Ben J. Ward b****d@p****m 32
Ben J. Ward w****0@g****m 8
github-actions[bot] 4****] 4
Arda Akdemir a****1@g****m 1

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 13
  • Total pull requests: 16
  • Average time to close issues: 6 months
  • Average time to close pull requests: 10 days
  • Total issue authors: 2
  • Total pull request authors: 3
  • Average comments per issue: 2.38
  • Average comments per pull request: 1.25
  • Merged pull requests: 14
  • Bot issues: 0
  • Bot pull requests: 5
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
  • ardakdemir (7)
  • SabrinaJaye (6)
Pull Request Authors
  • SabrinaJaye (10)
  • github-actions[bot] (5)
  • ardakdemir (1)
Top Labels
Issue Labels
enhancement (3) bug (1) feature extension (1) confirm (1)
Pull Request Labels

Packages

  • Total packages: 1
  • Total downloads:
    • julia 1 total
  • Total dependent packages: 1
  • Total dependent repositories: 0
  • Total versions: 2
juliahub.com: GenomeGraphs

A modern genomics framework for julia

  • Versions: 2
  • Dependent Packages: 1
  • Dependent Repositories: 0
  • Downloads: 1 Total
Rankings
Dependent repos count: 9.9%
Stargazers count: 11.2%
Average: 14.7%
Forks count: 14.9%
Dependent packages count: 23.0%
Last synced: 6 months ago