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Presented By: Functional MRI Lab

Functional MRI 2020-21 Symposium Speaker - Andrew Jahn, Ph.D.

BIDS and Standardized Pipelines for Preprocessing Neuroimaging Data

Jahn photo Jahn photo
Jahn photo
Abstract: Over the past decade, many new methods for preprocessing neuroimaging data have been developed. With so many options to choose from, researchers can be bewildered by the different combinations of parameters for steps such as slice-timing correction, coregistration, and normalization. In response to this, standardized preprocessing pipelines such as fMRIPrep have been developed to give researchers an optimized preprocessing pipeline drawing from many different software packages such as AFNI, FSL, and ANTs. The output can then be used with any neuroimaging software for further analysis. In this talk we will review how BIDS, a standardized format for organizing neuroimaging data, enables the use of software such as fMRIPrep, and allows for easier sharing on sites such as OpenNeuro. We will have a practical demonstration of how to organize data into BIDS format, and how to interpret the output from the fMRIPrep pipeline.

The format of this workshop will be a lecture followed by a hands-on tutorial of looking at a typical BIDS subject and the output from fMRIPrep. Those who wish to follow along with the practical part of the seminar should have access to a command line (e.g., the Terminal that comes with a typical Macintosh operating system, or Cygwin on Windows), and an image viewer, such as FSL's fsleyes or AFNI's image viewer.

Register in advance for this meeting:
https://umich.zoom.us/meeting/register/tJIvc-2hpzMjHdZTYYKyy1ANt6zrLGW16tjO

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