Science Score: 10.0%
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
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○Academic publication links
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✓Committers with academic emails
2 of 6 committers (33.3%) from academic institutions -
○Institutional organization owner
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○JOSS paper metadata
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○Scientific vocabulary similarity
Low similarity (17.1%) to scientific vocabulary
Keywords
Repository
Causal Dynamic Network Modeling
Basic Info
Statistics
- Stars: 14
- Watchers: 2
- Forks: 4
- Open Issues: 0
- Releases: 0
Topics
Metadata Files
README.md
Causal Dynamic Network Modeling
This is a preliminary version of our code. More features will be added soon! cdn-fmri is a Python-based package implementing causal dynamic network analysis for Functional magnetic resonance imaging (fMRI). It aims to improve the dynamic causal modeling with the optimization based method. Our optimization-based method and algorithm compute efficiently the ODE parameters from fMRI data, instead of comparing potentially a huge number of candidate ODE models. For a detailed introduction of dynamic causal modeling, see (1). For a sparse version of this package, see (2). This version may perform better in some cases.
Cite our paper
@article{cao2019functional, title={A Functional Data Method for Causal Dynamic Network Modeling of Task-related fMRI}, author={Cao, Xuefei and Sandstede, Bjorn and Luo, Xi}, journal={Frontiers in Neuroscience}, volume={13}, pages={127}, year={2019}, publisher={Frontiers} }
Getting Started
This package supports both python 2.7 and python 3.6.
The example provided in the repo has been tested in mac os and Linux environment.
These instructions will get you a copy of the project up running on your local machine for development and testing purposes.
This package is also published in pypi. For a quick installation, try
pip install cdn-fmri
Prerequisites
What things you need to install the software and how to install them
See setup.py for details of packages requirements.
Installing from GitHub
Download the packages by using git clone https://github.com/xuefeicao/cdn.git
python setup.py install
If you experience problems related to installing the dependency Matplotlib on OSX, please see https://matplotlib.org/faq/osx_framework.html
Intro to our package
After installing our package locally, try to import cdn in your python environment and learn about package's function.
Note: our package name in pypi is cdn-fmri.
import cdn.cdn_analysis as cdn_analysis
help(cdn_analysis.cdn_multi_sub)
Examples
The examples subfolder includes a basic analysis of CDN analysis.
Built With
- Python 2.7
Compatibility
- python 2.7
- python 3.6
Authors
- Xuefei Cao - Maintainer - (https://github.com/xuefeicao)
- Björn Sandstede (http://www.dam.brown.edu/people/sandsted/)
- Xi Luo (http://bigcomplexdata.com/)
License
This project is licensed under the MIT License - see the LICENSE file for details
Owner
- Name: Xuefei Cao
- Login: xuefeicao
- Kind: user
- Company: Facebook
- Website: https://xuefeicao.github.io/
- Repositories: 4
- Profile: https://github.com/xuefeicao
GitHub Events
Total
Last Year
Committers
Last synced: over 2 years ago
Top Committers
| Name | Commits | |
|---|---|---|
| Xuefei Cao | x****1@g****m | 32 |
| Xuefei Cao | x****o@b****u | 11 |
| Xuefei Cao | x****o@X****l | 10 |
| Xi (Rossi) Luo | x****o@g****m | 2 |
| Xi Rossi LUO | x****1@b****u | 2 |
| xuefei | x****y@g****m | 1 |
Committer Domains (Top 20 + Academic)
Issues and Pull Requests
Last synced: 6 months ago
All Time
- Total issues: 1
- Total pull requests: 2
- Average time to close issues: 5 days
- Average time to close pull requests: about 15 hours
- Total issue authors: 1
- Total pull request authors: 2
- Average comments per issue: 1.0
- Average comments per pull request: 0.0
- Merged pull requests: 2
- 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
- arosas5 (1)
Pull Request Authors
- rluo (1)
- xuefeicao (1)
Top Labels
Issue Labels
Pull Request Labels
Packages
- Total packages: 1
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Total downloads:
- pypi 42 last-month
- Total dependent packages: 0
- Total dependent repositories: 1
- Total versions: 3
- Total maintainers: 1
pypi.org: cdn-fmri
Implementations of Causal Dynamic Network Analysis of fMRI
- Homepage: https://github.com/xuefeicao/cdn
- Documentation: https://cdn-fmri.readthedocs.io/
- License: mit
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Latest release: 0.0.2
published over 7 years ago
Rankings
Maintainers (1)
Dependencies
- matplotlib >=1.5.3
- numpy >=1.11.1
- scikit-learn >=0.18.1
- scipy >=0.19.0
- six >=1.10.0