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image:: https://api.codacy.com/project/badge/Grade/a793c78a53eb4435a4bb86d725c8f817\n   :alt: Codacy Badge\n   :target: https://app.codacy.com/gh/saratheriver/ENIGMA?utm_source=github.com\u0026utm_medium=referral\u0026utm_content=saratheriver/ENIGMA\u0026utm_campaign=Badge_Grade\n\n.. image:: https://img.shields.io/badge/license-BSD-brightgreen\n   :target: https://opensource.org/licenses/BSD-3-Clause\n\n.. image:: https://readthedocs.org/projects/pip/badge/?version=stable\n    :target: https://pip.pypa.io/en/stable/?badge=stable\n    :alt: Documentation Status   \n\n.. image:: https://circleci.com/gh/MICA-MNI/ENIGMA/tree/master.svg?style=shield\n    :target: https://circleci.com/gh/MICA-MNI/ENIGMA/tree/master\n\n.. image:: https://img.shields.io/badge/doi-10.1101%2F2020.12.21.423838-brightgreen\n    :target: https://doi.org/10.1101/2020.12.21.423838\n\n.. image:: https://img.shields.io/twitter/follow/saratheriver?style=flat\u0026logo=twitter\u0026color=brightgreen\n    :target: https://twitter.com/intent/follow?screen_name=saratheriver\n\n.. image::  https://img.shields.io/badge/great%20tools-good%20vibes%20%F0%9F%A4%99-brightgreen\n    :target: https://www.youtube.com/watch?v=kIV1a8tE_2w\u0026ab_channel=Hypnotized\n\n.. image:: https://img.shields.io/github/stars/MICA-MNI/ENIGMA.svg?style=flat\u0026label=%E2%AD%90%EF%B8%8F%20give%20us%20some%20love\u0026color=brightgreen\n    :target: https://github.com/MICA-MNI/ENIGMA/stargazers\n\n.. raw:: html\n\n    \u003chr\u003e\n\n.. image::  https://github.com/saratheriver/enigma-extra/blob/master/title.png?raw=true\n    :align: center\n    :scale: 50%\n\n.. raw:: html\n\n    \u003chr\u003e\n\nThe **ENIGMA TOOLBOX** is an open source repository for (*i*) accessing 100+ ENIGMA-derived statistical maps, (*ii*) \nvisualizing and manipulating cortical and subcortical surface data, and (*iii*) contextualizing neuroimaging findings \nat the microscale (using *postmortem* gene expression and cytoarchitecture) and macroscale (using structural and functional \nconnectome data).\n\n.. image::  https://github.com/saratheriver/enigma-extra/blob/master/Figure0_GH3.png?raw=true\n    :align: center\n    :scale: 50%\n\nDocumentation 💼\n---------------------------------------------\nCheck out our expandable online documentation at http://enigma-toolbox.readthedocs.io to learn how to:\n\n| 🔌 install ENIGMA Toolbox in Python or Matlab\n| 💯 load over 100 case-control datasets from several ENIGMA Working Groups\n| 🥍 perform cross-disorder analyses\n| 🚢 import your own data\n| 🧩 map parcellated data to and from vertexwise space\n| 🥡 export data and data results to several file formats\n| 🧠 visualize and manipulate cortical and subcortical surface data\n| 🔗 load preprocessed connectivity data from the Human Connectome Project (HCP)\n| 🧬 load gene expression data from the Allen Human Brain Atlas\n| 🎣 query pre-defined lists of disease-related genes from published GWAS\n| 🔬 stratify neuroimaging findings according to BigBrain statistical moments and gradient\n| 📱 stratify neuroimaging findings according to cytoarchitectural variations\n| 🛩 build hub susceptibility models\n| 📌 identify disease epicenters\n| 🌪 perform spin permutation tests on parcellated data\n\n|\n\nInstallation 🔨\n---------------------------------------------\n\nTo install the Toolbox in ``Python``, run the following in your terminal:\n\n.. code-block:: bash\n\n    git clone https://github.com/MICA-MNI/ENIGMA.git\n    cd ENIGMA\n    python setup.py install\n\n|\n\nTo install the Toolbox in ``Matlab``, run the following in your terminal:\n\n.. code-block:: bash\n\n    git clone https://github.com/MICA-MNI/ENIGMA.git\n\nAnd then simply run the following in Matlab:\n\n.. code-block:: matlab\n\n    addpath(genpath('/path/to/ENIGMA/matlab/'))\n\n|\n\nAcknowledgements 💕\n----------------------------\n\nPlease acknowledge this work using the citation below:\n\n    Larivière, S., Paquola, C., Park, By. Royer, J., Wang, Y., Benkarim, O., Vos de Wael, R., Valk, S., Thomopoulos, S.I., Kirschner, M., Lewis, L.B., Evans, A.C., Sisodiya, S.M., McDonald, C.R., Thompson, P.T, Bernhardt, B.C.. The ENIGMA Toolbox: multiscale neural contextualization of multisite neuroimaging datasets. *Nat Methods* **18**, 698–700 (2021). https://doi.org/10.1038/s41592-021-01186-4\n\n.. raw:: html\n\n    \u003chr\u003e\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmica-mni%2Fenigma","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fmica-mni%2Fenigma","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmica-mni%2Fenigma/lists"}