https://github.com/bioanalyticresource/eplant
ePlant is a gene-centric visualization tool for plant genomes
Science Score: 36.0%
This score indicates how likely this project is to be science-related based on various indicators:
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○CITATION.cff file
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✓codemeta.json file
Found codemeta.json file -
✓.zenodo.json file
Found .zenodo.json file -
○DOI references
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✓Academic publication links
Links to: ncbi.nlm.nih.gov -
○Academic email domains
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○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (8.6%) to scientific vocabulary
Repository
ePlant is a gene-centric visualization tool for plant genomes
Basic Info
- Host: GitHub
- Owner: BioAnalyticResource
- License: gpl-2.0
- Language: TypeScript
- Default Branch: staging
- Homepage: https://bioanalyticresource.github.io/ePlant/
- Size: 4.28 MB
Statistics
- Stars: 7
- Watchers: 4
- Forks: 12
- Open Issues: 17
- Releases: 0
Metadata Files
README.md
ePlant
ePlant is a gene-centric visualization tool for plant genomes.
Using ePlant
Choose a gene of interest (GOI) using the search bar on the left. Currently we only support the Arabidopsis thaliania genome.
Use the navigation dropdown to select different views. Each view displays information from the organism level to the molecular leve. Nanometer scale all the way to the kilometer scale.
Available views:
ℹ️ Gene information. This view provides a brief description, location, gene model, DNA sequence, and protein sequence
📑 Publications. This view displays publications and Gene RIFs related to your gene of interest.
🌱 Plant eFP. This view displays expression levels for your gene of interest at the organism level.
🔬 Tissue & Experiment eFP: This view displays expression levels for your gene of interest after experimental treatment.
How to contribute
Read the CONTRIBUTING.md file. Read the onboarding blueprint.
If you'd like to contribute, pick an issue. We use a forking workflow. For an in-depth look at what that means, read this article.
Glossary
AtGenExpress: A multinational effort designed to uncover the transcriptome of the multicellular model organism Arabidopsis thaliana.
BAR: Bio-analytic resource; a group of bioinformatics tools created by the lab of Dr. Nicholas Provart at the University of Toronto.
BAR API: An application programming interface of bio-analytic resources available at https://bar.utoronto.ca/api/.
GOI: Gene of interest; the gene displayed in ePlant.
eFP: Electronic fluorescent pictographic
GeneRIF: Gene reference into function; A standard that provides a mechanism to allow scientists to add to the functional annotation of genes described in Gene.
Owner
- Name: BioAnalyticResource
- Login: BioAnalyticResource
- Kind: organization
- Location: University of Toronto
- Website: bar.utoronto.ca
- Repositories: 15
- Profile: https://github.com/BioAnalyticResource
Data visualization tools for multiple levels of plant data.
GitHub Events
Total
- Create event: 9
- Issues event: 19
- Watch event: 1
- Delete event: 16
- Member event: 1
- Issue comment event: 11
- Push event: 81
- Gollum event: 5
- Pull request review comment event: 65
- Pull request event: 29
- Pull request review event: 67
Last Year
- Create event: 9
- Issues event: 19
- Watch event: 1
- Delete event: 16
- Member event: 1
- Issue comment event: 11
- Push event: 81
- Gollum event: 5
- Pull request review comment event: 65
- Pull request event: 29
- Pull request review event: 67
Issues and Pull Requests
Last synced: 10 months ago
All Time
- Total issues: 4
- Total pull requests: 13
- Average time to close issues: N/A
- Average time to close pull requests: about 2 months
- Total issue authors: 3
- Total pull request authors: 5
- Average comments per issue: 0.0
- Average comments per pull request: 0.77
- Merged pull requests: 7
- Bot issues: 0
- Bot pull requests: 0
Past Year
- Issues: 4
- Pull requests: 12
- Average time to close issues: N/A
- Average time to close pull requests: about 1 month
- Issue authors: 3
- Pull request authors: 5
- Average comments per issue: 0.0
- Average comments per pull request: 0.5
- Merged pull requests: 6
- Bot issues: 0
- Bot pull requests: 0
Top Authors
Issue Authors
- mwkyuen (15)
- nprovart (8)
- VinLau (7)
- Yukthiw (4)
- alexwaeseperlman (3)
- y330 (2)
- zkdan (2)
- bdls-jamal (2)
Pull Request Authors
- Yukthiw (21)
- zkdan (18)
- jamiewaese (10)
- bdls-jamal (6)
- y330 (5)
- mwkyuen (4)
- apiraam96 (2)
- tinaba96 (2)
- alexwaeseperlman (1)
- asherpasha (1)
- gabydd (1)
Top Labels
Issue Labels
Pull Request Labels
Dependencies
- 1626 dependencies
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