nat
Python module to use the annotations created with NeuroCurator, for example in a Jupyter notebook.
Science Score: 23.0%
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
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○.zenodo.json file
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✓DOI references
Found 2 DOI reference(s) in README -
○Academic publication links
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✓Committers with academic emails
5 of 6 committers (83.3%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (11.5%) to scientific vocabulary
Keywords
Repository
Python module to use the annotations created with NeuroCurator, for example in a Jupyter notebook.
Basic Info
- Host: GitHub
- Owner: BlueBrain
- License: other
- Language: Jupyter Notebook
- Default Branch: master
- Homepage: https://pypi.python.org/pypi/nat/
- Size: 12.4 MB
Statistics
- Stars: 8
- Watchers: 5
- Forks: 6
- Open Issues: 9
- Releases: 0
Topics
Metadata Files
README.md
Getting Started | Upgrade | Releases | Status
NeuroAnnotation Toolbox (NAT)
Python module to use the annotations created with NeuroCurator, for example in a Jupyter notebook.
This framework has been described in details in the following open-access paper: https://doi.org/10.3389/fninf.2017.00027.
NAT provides the necessary functions and utilities to: - reliably annotate the neuroscientific literature, - curate published values for modeling parameters, - save them in reusable corpora.
Getting Started
Installation
After having installed the requirements:
bash
pip3 install nat
Before, you might want to create a dedicated environment with conda:
bash
conda create --name nat_env python=3.7
conda activate nat_env
Requirements
- Python 3.5+
- Git 1.7.0+ (GitPython)
- Miniconda (optional)
Python dependencies
Upgrade
bash
pip3 install --upgrade nat
If you have used conda, activate the environment before:
bash
conda activate nat_env
Releases
Versions and their notable changes are listed in the releases section.
Status
Created during 2016.
Ongoing stabilization and reengineering in the branch refactor-architecture.
The branch refactor-architecture is not intended to be used by end-users.
New features, bug fixes and improvements are done on the reengineered code sections.
When a reengineered code section is stable, it's merged into the branch master and a release is published.
Owner
- Name: The Blue Brain Project
- Login: BlueBrain
- Kind: organization
- Email: bbp.opensource@epfl.ch
- Location: Geneva, Switzerland
- Website: https://portal.bluebrain.epfl.ch/
- Repositories: 226
- Profile: https://github.com/BlueBrain
Open Source Software produced and used by the Blue Brain Project
GitHub Events
Total
- Fork event: 2
Last Year
- Fork event: 2
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Christian O'Reilly | c****y@e****h | 225 |
| Pierre-Alexandre Fonta | p****a@e****h | 62 |
| Christian O'Reilly | c****y@g****m | 8 |
| Zandt Bas-Jan | z****t@b****h | 3 |
| Elisabetta Iavarone | e****e@e****h | 2 |
| Ben Morrice | b****e@e****h | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 16
- Total pull requests: 6
- Average time to close issues: 5 months
- Average time to close pull requests: 7 days
- Total issue authors: 2
- Total pull request authors: 3
- Average comments per issue: 1.13
- Average comments per pull request: 0.33
- Merged pull requests: 4
- 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
Top Authors
Issue Authors
- christian-oreilly (8)
- pafonta (8)
Pull Request Authors
- christian-oreilly (4)
- MFSY (1)
- pafonta (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- pypi 92 last-month
- Total dependent packages: 0
- Total dependent repositories: 2
- Total versions: 4
- Total maintainers: 2
pypi.org: nat
Module to use the annotations created with NeuroCurator.
- Homepage: https://github.com/BlueBrain/nat
- Documentation: https://nat.readthedocs.io/
- License: GPLv3
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Latest release: 0.4.3
published over 7 years ago
Rankings
Dependencies
- beautifulsoup4 *
- gitpython *
- lxml *
- numpy *
- pandas *
- parse *
- python-dateutil *
- pyzotero *
- quantities *
- requests *
- scipy *