[JOSS] Write paper.md manuscript

[KedoKudo]

Summary

Write the JOSS paper manuscript following the journal's format requirements.

JOSS Paper Requirements

The paper should be short (typically 1-2 pages, ~1000 words max) and include:

Required Sections

• Title: Clear, descriptive title
• Authors: List with ORCID identifiers and affiliations
• Summary: Brief description of the software (2-3 paragraphs)
• Statement of Need: Why this software exists, target audience, research context
• Features: Key functionality (not exhaustive)
• Comparison: How it relates to other software in the field
• Acknowledgements: Funding, contributions
• References: Citations to relevant papers

Content Guidelines

Focus on:

• High-performance TPX3 processing (96M+ hits/sec)
• Multiple clustering algorithms (ABS, DBSCAN, Grid)
• Python bindings via PyO3
• GUI for interactive analysis
• NeXus-compatible HDF5 output

File Structure

paper/
├── paper.md      # Main manuscript (Markdown)
├── paper.bib     # References (BibTeX)
└── figures/
    └── architecture.png  # Optional figures

References

• JOSS paper guide: https://joss.readthedocs.io/en/latest/submitting.html#what-should-my-paper-contain
• Example papers: https://joss.theoj.org/papers