This page serves as a preliminary user guide for PyReconstruct, an extensible successor to RECONSTRUCT™ written from the ground up in Python. Please have a look at the source code on our lab's GitHub site. Question can be directed toward PyReconstruct's primary developers, Julian Falco (julian.falco@utexas.edu) and Michael Chirillo (m.chirillo@utexas.edu).

Basics

Installation
   - Launching
   - Starting new series

- Images

   - Change img dir
   - Convert to zarr

- Main window 

   - Field
   - Tools
      - One-by-one
   - Palette
      - Editing trace-palette
      - Multiple trace palettes
      - Increment buttons
   - Visibility / viewing

List / List-operations

   - Regular expressions
   - Section lists / operations
   - Trace list / tags
   - Object list / groups
   - Z-trace list

- 3D scene

3D Scene stuff...

- Series operations

Calibration
Alignments (importing, changing, etc.)
Propagation operations
Importing / exporting
      - Importing traces (no duplicates imported)
      - Importing alignments
      - Importing palettes
      - Exporting back to legacy (remember some data lost)

Meta-data

Commenting / Flags

Curating

Miscellaneous

Extra stuff here...