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Set of Octave and Matlab functions, demos and scripts to help manage ROIs and to play nice with BIDS datasets. Mostly volume-based and SPM centric.

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cpp-lln-lab/CPP_ROI

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CPP ROI

Set of Octave and Matlab functions, demos and scripts to help manage ROIs and to play nice with BIDS datasets.

Mostly volume-based and SPM centric.

For surface based and freesurfer ROIs see for example:

Installation

Download this repository and unzip the content where you want to install it.

Or clone the repo.

git clone https://github.com/cpp-lln-lab/CPP_ROI.git

Fire up Octave or Matlab and type

cd CPP_ROI

% The following adds the relevant folders to your path.
% This needs to be done once per session (your path will not be saved)

initCppRoi

If you are using CPP_SPM, you got nothing to do as CPP_ROI is already installed as a submodule, and initialized when running initCppSpm.

Dependencies

Dependencies Used version
Matlab 20???
or octave 4.?
SPM12 v7487
bids-matlab >=0.1.0
  • Other dependencies (MarsBar) are shipped with CPP_ROI in the lib folder.

Features

  • create ROI from probability maps
  • create ROI from atlas (see below)
  • create ROI filenames that are "BIDS-ish"
  • extract ROI with a given numerical label
  • extract ROI from one hemisphere
  • breaks a cluster image into several ROIs with each their own label

Atlas

Also includes:

  • Yeo's 7 networks "atlas"
Marco Barilari
Marco Barilari

💻 📖 🤔
Remi Gau
Remi Gau

💻 📖 🚇 🎨 👀 🐛 ⚠️
Jeanne Caron-Guyon
Jeanne Caron-Guyon

🤔 📓
Iqra Shahzad
Iqra Shahzad

📓
Federica Falagiarda
Federica Falagiarda

🐛 📓
Ceren Battal
Ceren Battal

💻 👀 📓
Jacek Matuszewski
Jacek Matuszewski

🐛 📓
Ying Yang
Ying Yang

🐛 📓

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Set of Octave and Matlab functions, demos and scripts to help manage ROIs and to play nice with BIDS datasets. Mostly volume-based and SPM centric.

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