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A pipeline used to vizualize and analyze clarity treated brain images.

Project Description

# clviz

[![](]( [![Build Status](](

clviz is a Python 2 package for Clarity brain analysis. It supports ANALYZE (plain, SPM99, SPM2 and later), GIFTI, NIfTI1, NIfTI2, MINC1, MINC2, MGH and ECAT as well as Philips PAR/REC.

## Installation

To install the prerequisite packages, clone the directory using: ` git clone cd clviz pip install -r requirements.txt `

Afterwards install opencv. This is easily accomplishable if you have brew or conda by using either
` brew install opencv ` or ` conda install opencv ` If not, install opencv by following their build instruction here:

After installing the prerequisites there’s two options for using clviz. You can use clviz as a standalone package and perform basic analysis on your own files, or you can install ndreg and ndio and use clviz as a powerful integrating tool for graph-based analysis.

` pip install clarityviz `

## Docker Installation ` docker pull lkzhu1/ubuntu:prototype1 docker run -t -i lkzhu1/ubuntu:prototype1 `

## Getting Started

In development but tutorials will be uploaded shortly!

## Documentation

Complete documentation is located at

## Credits

Credit to installation script in .travis.yml goes to

Release History

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