Jonathan Power
  • Papers
    • 2020 Respiratory Patterns
    • 2020 fMRI denoising events
    • 2019 Respiratory Measures
    • 2019 PNAS reply to Spreng
    • 2019 Respiratory Motion
    • 2018 Glasser comment
    • 2018 Head molds
    • 2018 PNAS multiecho
    • 2017 TiCS response
    • 2017 PLOS ONE Despiking
    • 2017 NI Global signals
    • 2017 NI The Plot
    • 2015 NI Motion Review
    • 2014 Neuron RSFC Primer
    • 2014 PNAS lesion
    • 2014 HBM task censoring
    • 2014 NI motion #2
    • 2013 Neuron hubs
    • 2013 NI comment
    • 2013 CONEUR
    • 2012 NI motion #1
    • 2011 Neuron bigbrain
    • 2010 Neuron devo review
  • Contact
  • Resources
  • Positions


Data and files relevant to specific papers should be on the webpage for that paper. Here you'll find more general purpose material.


Learning data science
Books, slides, and lectures related to math, stats, plotting and graphing data, etc.

​Reading series (from 2015)
A 30-week set of research articles that I go through with people to teach them fMRI and resting state techniques.

Medical resources (from 2018)

Tools to make stop-motion movies (.zip - 220MB)
This .zip contains a sample set of pictures and a script to turn sets of pictures into 1080p .mov files in an automated way. See the video below for an example.
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Tools to turn MRI images into slices and gray-scale plots in Matlab (.zip - 35MB)
This .zip contains a Matlab script, sample data, and example output from the Matlab script. It shows how you can load a .nii.gz and create a variety of slice and scan-summary images using a few dozen lines of code. The video below shows some of the sample outputs.



Tools to evaluate physiological traces and calculate heart rate, peak amplitude, RVT, and RV measures (.zip - 10MB)
This .zip contains a Matlab script, sample data from 3 subjects, and example output from the Matlab script. It shows how I view physiological traces and some ways you can customize settings per-subject to obtain clean heart rate estimates. Also ways to calculate RV and RVT (you need AFNI for RVT).
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Tools to automate creation of foci pictures by Caret (.zip - 300MB)
This .zip contains scripts, sample data, and sample output. The sample data are the nodes and modules reported in my 2011 paper on brain networks. The scripts take lists of the node coordinates, the module assignments, and the colors I want modules to be, and turn them into .jpegs of the nodes on brain surfaces using Caret, the predecessor to Connectome Workbench. The video in the file (shown below) shows you how to use these scripts, and also how to use the Caret GUI to make similar kinds of pictures.


Tools to create Workbench (and Caret) surfaces from Freesurfer files; tools to automate surface picture-taking in Workbench 
Demo data are in 3 pieces, approximately 3GB total (Part1 Part2 Part3); the video is another 1.3GB (video)

This .zip contains scripts, sample data, and sample output. The sample data is a single subject from the Brain Genomics Superstruct Project. This "demo" is more involved than the other demos, but it's hard to give a useful bare bones demo for this kind stuff. At any rate, this .zip will take you from FreeSurfer segmentations of a subject's MP-RAGE to Caret and Workbench formats in about 10 minutes. Once you have Workbench formats, another set of scripts will take you to movies of fMRI scans in another few minutes. In the movie I'll run through the steps for the single subject. Also, though the demo contains ~3GB of data, this includes all intermediate files. Many of these files (easily half) I would normally discard when done, but I want to you have everything in the demo.