NanoJ-SQUIRREL

NanoJ-SQUIRREL quantifies super-resolution microscopy image quality as an ImageJ extension by comparing diffraction-limited and super-resolution images and generating quantitative maps that identify artifacts to guide imaging-parameter optimization.

Key Features:

• Quantitative Assessment: Generates quantitative maps that highlight defects and inconsistencies within super-resolution images.
• Comparison Framework: Performs direct comparisons between diffraction-limited images and corresponding super-resolution reconstructions from identical acquisition volumes.
• Optimization Guidance: Maps artifact-prone regions to inform adjustment of imaging parameters and protocols.

Scientific Applications:

• Super-resolution dataset quality control: Provides quantitative measures and spatial maps to assess the fidelity of super-resolution microscopy images.
• Nanoscale cellular and molecular imaging: Enables detection and mitigation of artifacts in studies of complex biological structures and dynamic processes at the nanoscale.

Methodology:

Systematic comparison of diffraction-limited and super-resolution images from identical acquisition volumes to produce quantitative maps that identify regions containing artifacts or defects and guide imaging-parameter refinement.