https://github.com/neurostuff/nimare

Coordinate- and image-based meta-analysis in Python
https://github.com/neurostuff/nimare

meta-analysis neuroimaging python

Last synced: 3 months ago
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Coordinate- and image-based meta-analysis in Python

Host: GitHub
URL: https://github.com/neurostuff/nimare
Owner: neurostuff
License: mit
Created: 2018-01-16T18:33:58.000Z (over 8 years ago)
Default Branch: main
Last Pushed: 2026-03-31T06:37:45.000Z (3 months ago)
Last Synced: 2026-03-31T08:43:53.060Z (3 months ago)
Topics: meta-analysis, neuroimaging, python
Language: Python
Homepage: https://nimare.readthedocs.io
Size: 31 MB
Stars: 209
Watchers: 6
Forks: 65
Open Issues: 102
Metadata Files:
- Readme: README.md
- Changelog: CHANGELOG.md
- Contributing: CONTRIBUTING.md
- License: LICENSE
- Code of conduct: CODE_OF_CONDUCT.md
- Zenodo: .zenodo.json

Awesome Lists containing this project

README

          # NiMARE: Neuroimaging Meta-Analysis Research Environment

A Python library for coordinate- and image-based meta-analysis.

[![Latest Version](https://img.shields.io/pypi/v/nimare.svg)](https://pypi.python.org/pypi/nimare/)

[![PyPI - Python Version](https://img.shields.io/pypi/pyversions/nimare.svg)](https://pypi.python.org/pypi/nimare/)

[![GitHub Repository](https://img.shields.io/badge/Source%20Code-neurostuff%2Fnimare-purple)](https://github.com/neurostuff/NiMARE)

[![DOI](https://zenodo.org/badge/117724523.svg)](https://zenodo.org/badge/latestdoi/117724523)

[![License](https://img.shields.io/badge/License-MIT-blue.svg)](https://opensource.org/licenses/MIT)

[![Test Status](https://github.com/neurostuff/NiMARE/actions/workflows/testing.yml/badge.svg)](https://github.com/neurostuff/NiMARE/actions/workflows/testing.yml)

[![Documentation Status](https://readthedocs.org/projects/nimare/badge/?version=stable)](http://nimare.readthedocs.io/en/stable/?badge=stable)

[![Codecov](https://codecov.io/gh/neurostuff/NiMARE/branch/main/graph/badge.svg)](https://codecov.io/gh/neurostuff/nimare)

[![Code style: black](https://img.shields.io/badge/code%20style-black-000000.svg)](https://github.com/psf/black)

[![Join the chat at https://mattermost.brainhack.org/brainhack/channels/nimare](https://img.shields.io/badge/mattermost-join_chat%20%E2%86%92-brightgreen.svg)](https://mattermost.brainhack.org/brainhack/channels/nimare)

[![RRID:SCR_017398](https://img.shields.io/badge/RRID-SCR__017398-blue.svg)](https://scicrunch.org/scicrunch/Resources/record/nlx_144509-1/SCR_017398/resolver?q=nimare&l=nimare)

[![Paper](https://img.shields.io/badge/Aperture-10.52294/001c.87681-darkblue.svg)](https://doi.org/10.52294/001c.87681)

[![Preprint](https://neurolibre.org/papers/10.55458/neurolibre.00007/status.svg)](https://doi.org/10.55458/neurolibre.00007)

Currently, NiMARE implements a range of image- and coordinate-based meta-analytic algorithms,

as well as several methods for advanced meta-analytic methods,

like automated annotation and functional decoding.

If you are interested in using a GUI to curate and perform large-scale meta-analyses along the lines of Neurosynth,

we recommend checking out [Neurosynth-Compose](https://compose.neurosynth.org/).

Neurosynth-Compose is a web application that takes over for Neurosynth,

allowing users to search across the literature and build large meta-analytic datasets,

which can then be analyzed with NiMARE.

## Installation

Please see our [installation instructions](https://nimare.readthedocs.io/en/stable/installation.html)

for information on how to install NiMARE.

### Installation with pip

```

pip install nimare

```

### Local installation (development version)

```

pip install git+https://github.com/neurostuff/NiMARE.git

```

## Citing NiMARE

If you use NiMARE in your research, we recommend citing the Zenodo DOI associated with the NiMARE version you used,

as well as the Aperture Neuro journal article for the NiMARE Jupyter book.

You can find the Zenodo DOI associated with each NiMARE release at https://zenodo.org/record/6642243#.YqiXNy-B1KM.

```BibTeX

# This is the Aperture Neuro paper.

@article{Salo2023,

  doi = {10.52294/001c.87681},

  url = {https://doi.org/10.52294/001c.87681},

  year = {2023},

  volume = {3},

  pages = {1 - 32},

  author = {Taylor Salo and Tal Yarkoni and Thomas E. Nichols and Jean-Baptiste Poline and Murat Bilgel and Katherine L. Bottenhorn and Dorota Jarecka and James D. Kent and Adam Kimbler and Dylan M. Nielson and Kendra M. Oudyk and Julio A. Peraza and Alexandre Pérez and Puck C. Reeders and Julio A. Yanes and Angela R. Laird},

  title = {NiMARE: Neuroimaging Meta-Analysis Research Environment},

  journal = {Aperture Neuro}

}

# This is the Zenodo citation for version 0.0.11.

@software{salo_taylor_2022_5826281,

  author       = {Salo, Taylor and

                  Yarkoni, Tal and

                  Nichols, Thomas E. and

                  Poline, Jean-Baptiste and

                  Kent, James D. and

                  Gorgolewski, Krzysztof J. and

                  Glerean, Enrico and

                  Bottenhorn, Katherine L. and

                  Bilgel, Murat and

                  Wright, Jessey and

                  Reeders, Puck and

                  Kimbler, Adam and

                  Nielson, Dylan N. and

                  Yanes, Julio A. and

                  Pérez, Alexandre and

                  Oudyk, Kendra M. and

                  Jarecka, Dorota and

                  Enge, Alexander and

                  Peraza, Julio A. and

                  Laird, Angela R.},

  title        = {neurostuff/NiMARE: 0.0.11},

  month        = jan,

  year         = 2022,

  publisher    = {Zenodo},

  version      = {0.0.11},

  doi          = {10.5281/zenodo.5826281},

  url          = {https://doi.org/10.5281/zenodo.5826281}

}

```

To cite NiMARE in your manuscript, we recommend something like the following:

> We used NiMARE v0.0.11 (RRID:SCR_017398; Salo et al., 2022a; Salo et al., 2022b).

## Contributing

Please see our [contributing guidelines](https://github.com/neurostuff/NiMARE/blob/main/CONTRIBUTING.md)

for more information on contributing to NiMARE.

We ask that all contributions to `NiMARE` respect our [code of conduct](https://github.com/neurostuff/NiMARE/blob/main/CODE_OF_CONDUCT.md).

ecosyste.ms

Data

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https://github.com/neurostuff/nimare

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README