VolAlign

VolAlign is a work-in-progress Python package for volumetric image alignment, stitching, and processing.

Features

• Create BDV/XML files from FOV TIFF images.
• Stitch tiles using Fiji in headless mode.
• Blend image tiles into composite volumes.
• Resample 3D volumes.
• Apply manual affine alignments.
• Tune alignment with customizable pipelines.
• Convert between TIFF and Zarr formats.
• Downsample and stack TIFF images.
• Reorient volumes with rotation and optional flipping.

Installation

Clone the repository and install the required dependencies:

git clone https://github.com/XpressAI/VolAlign
cd volalign
pip install -r requirements.txt