Data

Tools

Indexes

Applications

Experiments

Open Source Science

BiochemicalVisualization

Graphical interface for BiochemicalAlgorithms.jl

https://github.com/hildebrandtlab/biochemicalvisualization.jl

Science Score: 44.0%

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

  • ✓
    CITATION.cff file
    Found CITATION.cff file
  • ✓
    codemeta.json file
    Found codemeta.json file
  • ✓
    .zenodo.json file
    Found .zenodo.json file
  • ○
    DOI references
  • ○
    Academic publication links
  • ○
    Academic email domains
  • ○
    Institutional organization owner
  • ○
    JOSS paper metadata
  • ○
    Scientific vocabulary similarity
    Low similarity (10.7%) to scientific vocabulary
Last synced: 6 months ago · JSON representation ·

Repository

Graphical interface for BiochemicalAlgorithms.jl

Basic Info
  • Host: GitHub
  • Owner: hildebrandtlab
  • License: mit
  • Language: JavaScript
  • Default Branch: develop
  • Size: 1.69 MB
Statistics
  • Stars: 1
  • Watchers: 2
  • Forks: 4
  • Open Issues: 5
  • Releases: 6
Created about 3 years ago · Last pushed 6 months ago
Metadata Files
Readme Contributing License Code of conduct Citation

README.md

BiochemicalVisualization

Stable Dev Build Status

BiochemicalVisualization is the graphical interface for BiochemicalAlgorithms.jl, providing different representations for biomolecular systems. All representations can be visualized in the form of interactive web widgets that are embeddable in Jypyter notebooks.

Installation

To install BiochemicalVisualization, open a Julia REPL, switch to the package mode by pressing ], and type

julia pkg> add BiochemicalVisualization

Usage

```julia using BiochemicalAlgorithms, BiochemicalVisualization

Read PDB file from the BiochemicalAlgorithms.jl repository

sys = loadpdb(balldata_path("../test/data/AlaAla.pdb"))

Prepare molecule

fdb = FragmentDB() normalizenames!(sys, fdb) reconstructfragments!(sys, fdb) build_bonds!(sys, fdb)

Visualize using ball-and-stick representation

ballandstick(sys) ``` Ball-and-stick representation of a simple molecule

Contributing

You have ideas for improvements, criticism, or ran into problems? You are looking for a feature that you know from BALL? Feedback and contributions are very welcome. Check out our guidelines and use our issue tracker or contact us via e-mail.

Owner

  • Name: hildebrandtlab
  • Login: hildebrandtlab
  • Kind: organization

Citation (CITATION.bib) 

@misc{BiochemicalVisualization.jl,
	author  = {Andreas Hildebrandt <andreas.hildebrandt@uni-mainz.de> and contributors},
	title   = {BiochemicalVisualization.jl},
	url     = {https://github.com/hildebrandtlab/BiochemicalVisualization.jl},
	version = {v0.1.0},
	year    = {2022},
	month   = {12}
}

GitHub Events

Total
  • Create event: 24
  • Commit comment event: 6
  • Release event: 3
  • Issues event: 1
  • Watch event: 1
  • Delete event: 19
  • Issue comment event: 2
  • Push event: 57
  • Pull request review event: 1
  • Pull request event: 22
Last Year
  • Create event: 24
  • Commit comment event: 6
  • Release event: 3
  • Issues event: 1
  • Watch event: 1
  • Delete event: 19
  • Issue comment event: 2
  • Push event: 57
  • Pull request review event: 1
  • Pull request event: 22

Issues and Pull Requests

Last synced: 6 months ago

All Time
  • Total issues: 0
  • Total pull requests: 7
  • Average time to close issues: N/A
  • Average time to close pull requests: 6 minutes
  • Total issue authors: 0
  • Total pull request authors: 3
  • Average comments per issue: 0
  • Average comments per pull request: 0.0
  • Merged pull requests: 4
  • Bot issues: 0
  • Bot pull requests: 2
Past Year
  • Issues: 0
  • Pull requests: 7
  • Average time to close issues: N/A
  • Average time to close pull requests: 6 minutes
  • Issue authors: 0
  • Pull request authors: 3
  • Average comments per issue: 0
  • Average comments per pull request: 0.0
  • Merged pull requests: 4
  • Bot issues: 0
  • Bot pull requests: 2
View more stats
Top Authors
Issue Authors
  • tkemmer (1)
  • JuliaTagBot (1)
Pull Request Authors
  • tkemmer (9)
  • github-actions[bot] (5)
  • anmabu (1)
  • dependabot[bot] (1)
Top Labels
Issue Labels
Pull Request Labels
dependencies (4) release (2) github_actions (1) bug (1) enhancement (1)

Packages

  • Total packages: 1
  • Total downloads: unknown
  • Total dependent packages: 0
  • Total dependent repositories: 0
  • Total versions: 6
juliahub.com: BiochemicalVisualization

Graphical interface for BiochemicalAlgorithms.jl

  • Versions: 6
  • Dependent Packages: 0
  • Dependent Repositories: 0
Rankings
Dependent repos count: 3.2%
Downloads: 5.5%
Average: 8.3%
Dependent packages count: 16.3%
Last synced: 6 months ago

Dependencies

.github/workflows/CI.yml actions
  • actions/checkout v3 composite
  • codecov/codecov-action v3 composite
  • julia-actions/cache v1 composite
  • julia-actions/julia-buildpkg v1 composite
  • julia-actions/julia-processcoverage v1 composite
  • julia-actions/julia-runtest v1 composite
  • julia-actions/setup-julia v1 composite
  • julia-actions/setup-julia latest composite
.github/workflows/Cleanup.yml actions
  • Mattraks/delete-workflow-runs v2 composite
.github/workflows/CompatHelper.yml actions
.github/workflows/DCO.yml actions
  • actions/checkout v3 composite
  • actions/setup-python v4 composite
.github/workflows/TagBot.yml actions
  • JuliaRegistries/TagBot v1 composite