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User Guide
Tutorials: Getting started
How to examples
Developing pyAFQ
Bibliography
API Reference
GitHub
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Section Navigation
Getting started with pyAFQ
Tutorials: Getting started
Getting started with pyAFQ - GroupAFQ
Getting started with pyAFQ - ParticipantAFQ
Re-running pyAFQ
Exporting pyAFQ Results
Visualizing AFQ derivatives
How pyAFQ uses BIDS
Plotting Default Regions of Interest (ROIs) to Understand the Tracts
How To
How to install
pyAFQ
How to get help using pyAFQ
How to cite our work
Organizing your data
Re-running pyAFQ
How to add custom tissue properties from another pipeline
Tractography from other pipelines
The pyAFQ docker image
The pyAFQ singularity image
The pyAFQ Image API
Tractography Parameters
Segmentation Parameters
Cleaning Parameters
How to examples
How to add new bundles into pyAFQ (Acoustic Radiations Example)
How to add new bundles into pyAFQ (SLF 1/2/3 Example)
Callosal bundles using AFQ API
How to use Free water DTI
BabyAFQ : tractometry for infant dMRI data
Delineating cerebellar peduncles
Using cloudknot to run pyAFQ on AWS batch:
AFQ with HCP data
How to add new bundles into pyAFQ(Optic Radiations Example)
How to track the Optic Tract and Posterior Optic Nerve in pyAFQ
Understanding the different stages of tractometry with videos
Running pyAFQ using the GPU for tractography
Running pyAFQ 2.x defaults in pyAFQ 3.x
Using RecoBundles for bundle recognition
Using Subject Space ROIs from Freesurfer
How to segment out only some bundles
Explanations
Bundle Orientation
Modeling White Matter
Profiling
Bundle Recognition
Tractography
What’s new in PyAFQ 3.0
Reference Documentation
API Reference
AFQ
AFQ.api
AFQ.data
AFQ.definitions
AFQ.models
AFQ.nn
AFQ.recognition
AFQ.registration
AFQ.tasks
AFQ.tractography
AFQ.utils
AFQ.viz
Defining Custom Bundle Dictionaries
Major Fiber Tracts
Tissue Properties in pyAFQ
The pyAFQ API methods
The pyAFQ API optional arguments
Visualization Backends
The pyAFQ Mapping API
The pyAFQ configuration file
User Guide
Reference Documentation
API Reference
AFQ
AFQ.models
AFQ.models.msmt
AFQ.models.msmt
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