Choose a vignette

Use this section when you want to accomplish a task. Each user-facing module has one canonical vignette, so you do not have to choose between several tutorials that appear to cover the same work.

Start with your situation

I want to…	Vignette
Run everything for a NEON flightline	Run the full pipeline
Continue after a stopped or partial run	Carry On My Wayward Son
Work on one part of the workflow	Choose a module below
Open a runnable Jupyter notebook	Runnable notebook vignettes
Look up exact arguments, filenames, or algorithms	Technical reference

Module vignettes

The numbered modules follow the order of the main NEON workflow. Drone and polygon workflows branch from that sequence where noted.

1. Acquire NEON data — download or reuse the source HDF5.
2. Correct NEON reflectance — create raw and BRDF/topography-corrected ENVI products.
3. Harmonize target sensors — translate corrected spectra into configured target-sensor bandspaces.
4. Build analysis tables — work with per-product and merged Parquet outputs.
5. Review QA outputs — render and interpret the PNG and JSON audit artifacts.
6. Process drone imagery — run the separate local-HDF5 drone workflow.
7. Extract polygon spectra — build polygon-indexed spectral libraries from completed products.

How to use these pages

Every vignette answers the same four questions:

1. When should I use this module?
2. What is the smallest runnable example?
3. What files prove that it worked?
4. Where are the deeper technical details?

The vignettes teach workflow. The technical reference defines contracts and implementation details.

Prefer code you can edit interactively? Every module also has one corresponding downloadable notebook, including a carefully isolated template for adding a custom correction between the standard topo/BRDF and convolution stages.