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Implementations of Causal Dynamic Network Analysis of fMRI

Project description

Causal Dynamic Network Modeling

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).

Getting Started

This package supports both python 2.7 and python 3.6.

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 and 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.

import cdn.cdn_analysis as cdn_analysis
help(cdn_analysis.cdn_multi_sub)

Examples

The examples subfolder includes a basic analysis of CDN analysis.

Running the tests

The test is going to be added in the future.

Built With

  • Python 2.7

Compatibility

  • python 2.7
  • python 3.6

Authors

License

This project is licensed under the MIT License - see the LICENSE file for details

Project details


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