205 Works

Generate images of data mapped to cortical surface

Brad Caron
This app will generate images (jpgs) of data mapped to the cortical surface using MNE-python's (https://mne.tools/stable/index.html) build of pysurfer (https://pysurfer.github.io/index.html).

FC Identifiability/Fingerprinting Analyses

App on processing, analyzing eFC

Segment tracts into multiple bundles using QuickBundles

Brad Caron
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Generate ROIs for Visual White Matter Tracking in dMRI Space (Freesurfer)

Brad Caron
This app will generate ROIs that can be used for visual white matter tracking, including optic radiation tracking. This includes V1 from a pRF visual area segmentation, the left and right LGNs from a thalamic nuclei segmentation, and exclusion ROIs from freesurfer. The ROIs will be resliced into diffusion space in of this.

Track the Human Optic RAdiation (THORA) - Trekker (V2)

Brad Caron, , Franco Pestilli & Soichi Hayashi
This app uses [Trekker](https://dmritrekker.github.io) to Track the Human Optic Radiation.

CBIG

Elijah Christopher Baughan
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Tractogram Filtering

Paolo Avesani & Pietro Astolfi
Filtering out of artifactual streamlines from a tractogram with a geometric deep learning model

Conmat to network

Simple brainlife app to create a network from a conmat matrix.

A dorso-ventral attention network in the human brain

Franco Pestilli & Ilaria Sani
Quantitative properties and tract profiles of the connections linking three key attentional control nodes located in the frontal, parietal and temporal lobes

earlyCNN

[unmaintained] An open-source convolutional neural networks platform for research in medical image analysis and image-guided therapy

mergeDWI

Sophia Vinci-Booher
Concatenates one or more diffusion images.

Generate images of DWI overlaid on T1

Brad Caron
Create mid-axial, sagittal, and coronal slice png of T1 image with DWI outline overlayed

Create brainmask of DWI using MrTrix3

Brad Caron
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pRFLife with mrTools

David Hunt
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mergeROI

Sophia Vinci-Booher
This app will merge two rois within an ROI datatype dataset into one ROI. The user must specify which two rois should be merged. The app will output one roi that contains all of the voxels that were in the two original rois.

FSL Anat (T2)

Brad Caron
This app will perform fsl_anat (https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/fsl_anat)

Collegiate athlete brain data for white matter mapping and network neuroscience

Brad Caron & Franco Pestilli
We present diffusion and anatomical (T1w) processed data and derivatives from a group of IU athletes (football, cross-country) and non-athletes (students). The raw data contains both anatomical (T1 weighted) and diffusion-weighted (dMRI) magnetic resonance imaging data. The processed data shares 14 types of derivatives across 42 participants, comprising of 84 brainmasks (2 per participant), 42 Freesurfer outputs (1 per participant), 168 fiber orientation dispersion (FOD) images (4 per participant), 588 diffusion parameter maps (14 per...

Compile tract profiles to summary structure

Brad Caron
This app will the individual tract tract profiles csv’s from the tractprofile dataype into a single summary csv for group analysis and machine learning. This app takes in a tractprofile datatype. The app will output a csv entitled ‘tracts.csv’ that can be used for group statistics and machine learning.

Track the Human Optic RAdiation - mrtrix3 iFOD2 (dtiinit)

Brad Caron
This app will generate optic radiations using MrTrix3's iFOD2 algorithm with the capability of using the Anatomically Constrained (ACT) framework

Make white matter mask in dwi space from Freesurfer (dtiinit)

Brad Caron
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dsi-studio-dwi2src

DSI Studio scripts converting DWI file to SRC format.

Little Test

Suna Guo
This is a little test of registering an app on Brainlife as part of the brain imaging course. This app takes an ACPC aligned anat/t1w data and resamples it to the desired resolution.

Test Python Template for Class

Augustin Hennings, Franco Pestilli & Tyler Larguinho
This App should be deleted. It used as an example for the class. The happy uses the code available at https://github.com/brainlife/app-template-python. The code is simple, it loads a t1w.nii.gz (which in brainlife.io is called neuro/anat) and resamples the file at the wanted resolution

Network Null Model

Generates an esemble of networks according to null models that try to reproduce the data. Erdos reyni (random), Barabási-Albert and Configuration model are implemented

Generate image of ODF

Brad Caron
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Registration Year

  • 2020
    205

Resource Types

  • Software
    204
  • Service
    1

Affiliations

  • The University of Texas at Austin
    4
  • Indiana University
    4