Honeychrome v0.8.0

Honeychrome v0.8.0 Release Notes

This release contains several new features, improvements and bug fixes.

Major new features

• The two major components of AutoSpectral have been added: Control Cleaning and Autofluorescence. These (optional) enhancements of the unmixing workflow are rapidly becoming the standard tool for fixing unmixing artifacts caused by variable autofluorescence.
• tabbed plugin system: Honeychrome now automatically loads plugins from a plugins folder; two example plugins included. Note that plugins are currently only available if Honeychrome is run in the Python environment (see installation instructions), not as a precompiled executable.
• 2D plots can now be shown as dot plots coloured by gate
• debug data: Honeychrome can send error/crash data if allowed by the user. Note that no personal identifiable information is collected or sent.

PyPi release

• You can now use Honeychrome in a Python environment, simply by issuing the command: "pip install honeychrome", then run "honeychrome" from the command line

Numerous improvements, including the following

• automatic recognition of antigens and fluorophore names in the spectral model editor
• better colourmap ranges to avoid saturation
• imported FCS files can now live anywhere: if they are not in the experiment folder, a symbolic link is set up from the experiment folder, so no more broken relative paths
• build system now produces executable installers for Linux (Ubuntu > 24.04), Windows (10, 11), and MacOs (ARM). Hopefully this will now cover (almost) everyone who had trouble running the previous executables

Also numerous bug fixes.

(Note Windows installer is hosted on the Microsoft Store, not Github.)