Skip to content
View natearnas's full-sized avatar
🤔
Building deconvolution in Arnas Scope.
🤔
Building deconvolution in Arnas Scope.
2 followers · 2 following

Achievements

Achievement: Starstruck

Achievements

Achievement: Starstruck

Block or report natearnas

Block user

Prevent this user from interacting with your repositories and sending you notifications. Learn more about blocking users.

You must be logged in to block users.

Maximum 250 characters. Please don’t include any personal information such as legal names or email addresses. Markdown is supported. This note will only be visible to you.
Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse
natearnas/README.md

Nathan J. O'Connor, PhD, MS

I build AI-enabled scientific workflows and analysis tools for microscopy, with a focus on light-sheet microscopy, deconvolution, neuroinformatics, and scientific Python.

Selected Work

MBF Bioscience — Image Analysis Comparison Metrics

Contributed Python utilities for image analysis comparison metrics in the public MBFBioscience/MBFPythonUtilities repository, particularly in Image/Analysis/Comparison.

These metrics supported analysis used in an associated whitepaper.

  • Focus: scientific image analysis, comparison workflows, and quantitative evaluation

Arnas Technologies

I'm the founder of Arnas Technologies, where I build deconvolution microscopy software and imaging workflows:

  • Arnas Scope — GPU-accelerated 3D deconvolution software for fluorescence microscopy (widefield, confocal, spinning disk, lightsheet, TIRF), available as a Windows GUI, CLI, and SDK/DLL. It carries the algorithmic heritage of AutoQuant AutoDeblur, which I helped create.
  • Arnas View — a real-time 2D deconvolution SDK for OEM integration: a lightweight C-ABI DLL that runs inside the camera acquisition loop at <3.5 ms latency.
  • Arnas Verify — an open reference implementation of the offline signed-license verification used in our desktop products.
  • Bead Analyzer — open-source PSF and FWHM characterization from bead images; the measurement companion to PSF-informed deconvolution.

More on the Arnas blog — fluorescence microscopy, lightsheet imaging, and big-data workflows.

Featured Repositories

bead-analyzer

An open-source Python tool for characterizing PSF and FWHM measurements from light-microscopic 2D and 3D images of microspheres.

wof-gender-analysis

A Python analysis project exploring gender patterns in Wheel of Fortune data.

Current Focus

  • AI-enabled scientific workflows
  • Microscopy image analysis
  • Deconvolution methods
  • Neuroinformatics
  • Scientific Python tooling

Links

Pinned Loading

  1. bead-analyzer bead-analyzer Public

    An open-source tool for characterizing PSF and FWHM measurements from light-microscopic 2D and 3D images of microspheres.

    Python 18 1

  2. Arnas-Verify Arnas-Verify Public

    Reference implementation of offline signed-license verification in Python, from Arnas Technologies

    Python