04 — Methods

Analytical Methods

Tutorials, videos, and tools used in crop science research — covering UAV image analysis, machine learning, 3D measurement, and more. Shared openly to support reproducibility and knowledge exchange.

Blog
Blog

Feature extraction from UAV orthoimages using QGIS

Step-by-step guide to calculating vegetation indices (SR, canopy height) via raster computation and exporting field-level CSV data

Blog

Getting started with Python data analysis using vibe coding

Building a reproducible analysis environment with Google Colab × LLM × Google Drive

Blog

Measurement of plant volume and surface area using 3D mesh data collected by LumaAI

Workflow for generating 3D models from video with LumaAI and measuring plant volume and surface area in Meshmixer

Blog

Texture analysis of UAV orthoimages using QGIS and Orfeo Toolbox

Running Haralick texture extraction with QGIS + OTB and applying results to crop growth estimation

Video
Video

Multispectral orthoimage development with Metashape

YouTube — Step-by-step tutorial for generating multispectral orthoimages from UAV imagery using Agisoft Metashape

Software
Software

LAYZER: Leaf Area analYZER

Zenodo / DOI: 10.5281/zenodo.18500958 — Python desktop app for automated leaf area measurement from RGB images using Excess Green (ExG) index and Otsu thresholding. Open source (CC BY 4.0)