Tedana Package Is Part Of The ME-ICA Pipeline

The tedana package is part of the ME-ICA pipeline, performing TE-dependent analysis of multi-echo functional magnetic resonance imaging (fMRI) data. TE-dependent analysis (tedana) is a Python module for denoising multi-echo functional magnetic resonance imaging (fMRI) data.

tedana originally came about as a part of the ME-ICA pipeline. The ME-ICA pipeline originally performed both pre-processing and TE-dependent analysis of multi-echo fMRI data; however, tedana now assumes that you’re working with data which has been previously preprocessed.

More information and documentation can be found at https://tedana.readthedocs.io.

Installation

Use tedana with your local Python environment

You’ll need to set up a working development environment to use tedana. To set up a local environment, you will need Python >=3.6 and the following packages will need to be installed:

You can then install tedana with

pip install tedana

Creating a miniconda environment for use with tedana

In using tedana, you can optionally configure a conda environment.

We recommend using miniconda3. After installation, you can use the following commands to create an environment for tedana:

conda create -n ENVIRONMENT_NAME python=3 pip mdp numpy scikit-learn scipy
conda activate ENVIRONMENT_NAME
pip install nilearn nibabel
pip install tedana

tedana will then be available in your path. This will also allow any previously existing tedana installations to remain untouched.

To exit this conda environment, use

conda deactivate

NOTE: Conda < 4.6 users will need to use the soon-to-be-deprecated option source rather than conda for the activation and deactivation steps. You can read more about managing conda environments and this discrepancy here.

Use and contribute to tedana as a developer:

If you aim to contribute to the tedana codebase and/or documentation, please first read the developer installation instructions in our contributing section. You can then continue to set up your preferred development environment.

GitHub:

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Lingaraj Senapati
Hey There! I am Lingaraj Senapati, the Co-founder of lingarajtechhub.com My skills are Freelance, Web Developer & Designer, Corporate Trainer, Digital Marketer & Youtuber.
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