CLAH Image Analysis

A comprehensive suite of Python programs for 2-photon calcium imaging analysis, with support for 1-photon imaging in progress. Best to use on a local server, with a GPU for faster processing and data stored on a drive(s) separate from the root mount.

Overview

CLAH Image Analysis provides tools for:

• 2-photon imaging analysis
• Motion correction and segmentation
• Cell registration
• Unit analysis
• Calcium imaging processing

Quick Navigation

• Installation Guide
• Order of Operations
• Structure for path names
• Command Line Tools
• Graphical User Interfaces

Getting Started

1. Follow the Installation Guide to set up your environment
2. Review the Order of Operations to understand the workflow
3. Check the Structure for path names to organize your data
4. Choose between Command Line Tools or Graphical User Interfaces based on your needs.