Documentation and demo examples for BIDS Datasets: running FitLins with 3dREMLfit in AFNI

[afni-gangc]

Title

Documentation and demo examples for BIDS Datasets: running FitLins with 3dREMLfit in AFNI

Short description and the goals for the OHBM BrainHack

FitLins is the numerical engine developed to solve models for FMRI data analysis. 3dREMLfit is an AFNI program that fits subject-level time series data with the temporal correlations of the residuals characterized through an ARMA(1,1) structure. The output includes regression coefficients, their t- and F-statistics (plus the associated degrees of freedom). The functionality of 3dREMLfit has been incorporated into FitLins, but its usage has not been documented.

This project solicits volunteers to write documents about model specification using FitLins with 3dREMLfit and to provide demonstrative examples.

Below are some related links: https://github.com/nih-fmrif/code-convergence-summaries/issues/8 https://fitlins.readthedocs.io/en/latest/usage.html https://afni.nimh.nih.gov/pub/dist/doc/program_help/3dREMLfit.html

Link to the Project

https://github.com/nih-fmrif/code-convergence-summaries/issues/8

Image for the OHBM brainhack website

No response

Project lead

Gang Chen (github: afni-gangc; discord: Gang Chen#1967)

Main Hub

Glasgow

Other Hub covered by the leaders

• [ ] Glasgow
• [ ] Asia / Pacific
• [ ] Europe / Middle East / Africa
• [ ] Americas

Skills

BIDS derivatives BIDS Stats Models Subject-level FMRI data analysis AFNI

Recommended tutorials for new contributors

• [X] Set up a brainhack friendly computing environment
• [ ] A introduction to Bash
• [ ] Python: Writing a script
• [ ] Python: Data analysis with Python
• [ ] Python: Visualisation
• [ ] Machine learning basics
• [X] BIDS
• [ ] Machine learning for neuroimaging
• [ ] VCS: Using Git and Github
• [ ] VCS: Data management with Datalad
• [ ] Virtualization
• [ ] High Performance Computing: Oracle cloud resource

Good first issues

No response

Twitter summary

No response

Short name for the Discord chat channel (~15 chars)

bids-fitlins-remlfit

Please read and follow the OHBM Code of Conduct

• [X] I agree to follow the OHBM Code of Conduct during the hackathon

[djarecka]

Thank you for submitting the project! We have 35 projects right now, woohoo! But that means the projects pitches will have to be short. We will give you tomorrow 2 minutes to pitch your project, you can have one slide or no slides! If you decide to use a slide, please include the link to the slide here.

And don't worry, you will still have more time to talk about your project during the BrainHack :-)