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CHRONOLOGICAL INDEX

Research archive

Every field note in one calm timeline—from developer workflows to AI-assisted plant phenotyping.

19
field notes
6
years documented

2026

1 notes
  1. PhenoHUB: A Mobile Toolkit for Digital Plant Phenotyping

    A January 2026 snapshot of a WeChat Mini Program combining field utilities, weather queries, image tools, and experimental AI assistants.

2025

7 notes
  1. Botanical Extract AI Pro: An Experimental Background-Isolation Workflow

    An experimental web and batch workflow for placing plants on white backgrounds with multimodal image models, including scientific and privacy limitations.

  2. MCTP: A Multi-Modal Crop Phenotyping Workspace

    A desktop workspace for hyperspectral, LiDAR, RGB, and thermal crop-phenotyping workflows, with clear boundaries between shared UI and cross-modal fusion.

  3. Predicting Leaf BRDF from Phenotypic Traits

    A peer-reviewed framework combining directional spectroscopy, BRDF fitting, phenotypic traits, ensemble learning, and canopy ray tracing in four species.

  4. Local AI Assistants and Agents: A Secure, Reproducible Deployment Guide

    A practical path from a local Ollama assistant to retrieval and controlled tool use, with explicit privacy, security, versioning, and deployment boundaries.

  5. Local Image Quantification in Python: An Experimental, Auditable Workflow

    A compact OpenCV workflow for segmenting isolated biological samples, exporting pixel and calibrated size descriptors, and documenting the validation required before scientific use.

  6. From Manuscript to Publication: A Practical Guide for Researchers

    A concise, publisher-neutral guide to journal selection, manuscript preparation, submission, peer review, publication status, research integrity, and post-publication maintenance.

  7. Hunyuan3D-1 for Plant Images: A Reproducible Exploration Guide

    A version-specific, evidence-aware workflow for generating exploratory plant meshes with Hunyuan3D-1 and validating why generative 3D output is not automatically a phenotype measurement.

2024

3 notes
  1. UAV 3D Crop Phenotyping: From CCO Acquisition to Validated Traits

    A field-to-analysis workflow for Cross-Circular Oblique UAV acquisition, SfM reconstruction, spatial referencing, point-cloud phenotyping, and honest model validation.

  2. Root Quantify: Interactive Root Image Preprocessing in Python

    A practical guide to using Root Quantify for polygon ROI selection, background correction, binary-mask cleanup, and organized export before downstream root analysis.

  3. Local LLMs: A Reproducible Guide to Running, Fine-Tuning, and Serving Models

    A maintainable workflow for choosing a local model, testing it with Ollama, planning parameter-efficient fine-tuning, evaluating results, and exposing a service safely.

2023

2 notes
  1. Canopy Photosynthesis from 3D Plant Models — A Conceptual Workflow

    A validation-first research framework connecting multi-view reconstruction, plant geometry, radiative transfer, leaf physiology, and canopy-scale uncertainty.

  2. DJI P4 Multispectral to Plot-Level Traits with WebODM and QGIS

    A validation-first workflow for processing DJI P4 Multispectral imagery in WebODM, checking band metadata in QGIS, and extracting plot-level vegetation features.

2022

3 notes
  1. PyTorch for Research — A Version-Aware Learning Roadmap

    A concise, reproducibility-focused route from tensors and training loops to transfer learning, evaluation, safe checkpoints, and deployment boundaries.

  2. Turntable Photogrammetry for Potted Cotton in a Growth Chamber

    An experimental, validation-first protocol for acquiring and reconstructing multi-view images of potted cotton plants in a controlled environment.

  3. A Reproducible Research Workflow with VS Code, Miniconda, and Git

    A practical workflow for structuring Python research projects, recording environments, collaborating through Git, and preserving data provenance.

2021

3 notes
  1. Git and GitHub Beginner Guide

    A safe, modern introduction to repositories, commits, branches, remotes, pull requests, authentication, and undoing mistakes.

  2. macOS Keyboard Shortcuts — A Practical Reference

    A compact, safety-aware reference for everyday macOS, Finder, text-editing, browser, screenshot, and recovery shortcuts.

  3. Build and Publish a Personal Website with Docusaurus and GitHub Pages

    A version-aware workflow for creating a Docusaurus portfolio, configuring GitHub Pages correctly, and maintaining a reliable deployment.

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