Connectomics Lab Toolkit Documentation

A comprehensive Python toolkit for neuroimaging data processing and analysis, specifically designed for working with brain connectivity data, BIDS datasets, and various neuroimaging formats.

• Free software: Apache Software License 2.0

• Source code: https://github.com/connectomicslab/clabtoolkit

• Python versions: 3.11+

Getting started

• Installation
  • Requirements and optional dependencies
• Quick Start
  • Filter a parcellation by region name
  • Sample an image along the streamlines of a tractogram
  • Plot a surface with a scalar map
  • Next steps
• What can you do with CLABTOOLKIT?
  • Colors and color tables
  • BIDS datasets and derivatives
  • Parcellations
  • Surfaces and FreeSurfer
  • Tractograms
  • Connectomes and networks
  • Diffusion MRI and images
  • Morphometry
  • Visualization
  • Quality control and everyday utilities
• Examples
  • General overview
  • Representative workflows
  • Examples by module

Reference

• API Reference
  • Data and formats
  • Surfaces and parcellations
  • Tractography and connectivity
  • Visualization and quality control

Project

• Contributing
• History

Indices and tables

• Index

• Module Index

• Search Page