RAW Tools

Utility library for consuming and manipulating x-ray volume data in .raw format.

Features

• Convert float32, uint16, and uint8 versions of .raw XRT volume data
• Extract image slices from .raw files
• Read, parse, and generate metadata files (.dat) for XRT data
• Convert proprietary .nsihdr files into .raw format (Windows only). Batch conversion supported as CLI and minimal GUI.
• Generate previews of XRT volumes for quality control (e.g., maximum density projections, midslice extraction, etc.)

Planned Features

• Generate dummy .raw files for testing downstream pipelines
• Batch conversion of .nsihdr on Linux systems
• Density adjustment (similar to automated adjustment MATLAB scripts for rootseg)

Related Projects

• xrcap: root crown image analysis pipeline
• DynamicRoots: tool for reconstructing and analyzing the growth of a plant root system
• TopoRoot: high-throughput computational method that computes fine-grained architectural traits from 3D CT images of excavated maize root crowns
• rootseg: ML-based segmentation for soil rich samples
• xrt-dmt: data management tool for tracking and archiving XRT (meta)data

Credits

This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.