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Service that allows data warehousing and workfow orchestration
brainlife.io home page
Brainlife wrapper app for Dipy workflows.
Split multi-shell diffusion data into a single chosen b value shell while rounding bvals
Application for Big Computational Data Specification (v1.0)
This app will generate nifti files for specific ROIs, or every ROI, for a parcellation (either freesurfer or atlas).
This service runs mrtrix tracking using SD_PROB, SD_STREAM, and DT_STREAM algorithms. It generates 3 separate track output for each algorithms.
This app will quickly check the dwi image to see if any bvecs directions needs to be flipped. The algorithm finds bvecs that are pointing toward certain direction and find the volume slice within 4D DWI data and see how many image slices indeed seems to contain features that are orthogonal to the bvecs directions.
Method for encoding brain connectomes in multidimensional arrays (tensors).
brainlife datatype validator for neuro/dwi
Docker container for freesurfer
This service uses MRtrix 0.2.12 to do ensemble tracking using tensor and constrained spherical deconvolution (csd) algorithms. It generates a large set of candidate streamlines using a tensor-based deterministic model, csd-based deterministic model, and csd-based probabilistic model. The csd-based models can be computed at lmax values of 2, 4, 6…
Networkneuro service will validate your tractographs with the diffusion signal and encode generated fascicles into the network. This creates networks that are lossless, in that the diffusion signal and anatomy information are preserved.
Classifies streamlines into known anatomical tracts.
This service allows you to submit T1 anatomical image and process it using Freesurfer, which is a software package for the analysis and visualization of structural and functional neuroimaging data from cross-sectional or longitudinal studies.
This app will perform ensemble tracking between 2 or more cortical regions of interest (ROIs) from either a freesurfer parcellation or an atlas parcellation. The app will automatically generate ROI niftis in diffusion space for tracking based on inputted ROI numbers. Inputs include: parcellation (freesurfer; atlas optional), dt6 from dtiinit, an…
LiFE (Linear Fasicle Evaluation) predicts the measured diffusion signal using the orientation of the fascicles present in a connectome. LiFE uses the difference between the measured and predicted diffusion signals to measure prediction error. The connectome model prediction error is used to compute two metrics to evaluate the evidence supporting…
MRView / noVNC docker container used by brain-life UI
Brain-Life Command Line Interface
This service cleans the output from AFQ and WMA using AFQ's AFQ_removeFiberOutliers function. For more information on the inputs of this application, please read the documentation at the top of the function: https://github.com/yeatmanlab/AFQ/blob/master/functions/AFQ_removeFiberOutliers.m
SOCR / Volume-based Multiple Linear Regression Analysis
Brain-Life instance of https://brainbrowser.cbrain.mcgill.ca/
This app uses the Automatic Registration Toolbox (ART) to perform ACPC alignment of the T1 image. See https://www.nitrc.org/projects/art/ for more information.
Will run LAP_single example