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An interactive meta-analysis of MRI biomarkers of myelin

Binder Colab


This repository contains the Jupyter Notebook to generate the interactive figures and the meta-analysis results for our study "An interactive meta-analysis of MRI biomarkers of myelin"*. It has been published on Elife as an executable research article (ERA).

* It was previously entitled "The quest for measuring myelin with MRI – An interactive meta-analysis of quantitative comparisons with histology" on bioRxiv."


Execute the notebook locally

Python (3.7), Jupyter, R (3.6) and the R packages metafor and multcomp are required to run the notebook. The mixed-effect model is fitted using metafor through the package rpy2.

The required Python packages can be installed using pip:

pip install -r requirements.txt

To generate the final HTML file from the Jupyter Notebook:

jupyter nbconvert meta-analysis.ipynb --no-input

Note:

The very first code cell needs to be run on Google Colab in order to retrieve the necessary packages and files.