Application to perform curation of neuroscientific literature.
Project description
Getting Started | Upgrade | Releases | Roadmap | Status
For the Annotation Viewer or the integration with theOpenMinTeDplatform, please refer to thisbranch.
NeuroCurator
Desktop application to perform systematic and collaborative curation of neuroscientific literature.
This is a Graphical User Interface (GUI) for the Python module NeuroAnnotation Toolbox (NAT).
This framework has been described in details in the following open-access paper: https://doi.org/10.3389/fninf.2017.00027.
With NeuroCurator, annotations are: - traceable, - reusable across projects, - structured with controlled vocabularies.
Getting Started
Installation
After having installed Git and ImageMagick 6:
pip3 install neurocuratorIf you would like to simplify the installation with Miniconda:
conda create --name nc python=3.7
conda activate nc
conda install beautifulsoup4 gitpython lxml numpy pandas scipy
pip install neurocuratorRequirements
System side:
Miniconda (optional)
Python side:
Launch
neurocuratorIf you have used Miniconda:
conda activate nc
neurocuratorUpgrade
pip install --upgrade neurocuratorIf you have used Miniconda:
conda activate nc
pip install --upgrade neurocuratorReleases
Versions and their notable changes are listed in the releases section.
Roadmap
Ongoing
Make the annotations publishable into a Blue Brain Nexus instance.
Stabilize NeuroCurator and NAT (Software Architecture).
TODO
Integrate fully the Annotation Viewer into NeuroCurator.
Semi-automate the Knowledge Extraction process.
Done (latest first)
Remove legacy dependencies in NeuroCurator (Qt 4 and Python 3.4).
Integrate OpenMinTeD annotations into the literature curation framework.
Visualize NeuroCurator and OpenMinTeD annotations directly on PDFs.
Make NeuroCurator easily installable, especially by scientists.
Updated on 20.07.18.
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.
