mmSIM

mmSIM provides software components for controlling and analyzing structured illumination microscopy (SIM), enabling capture of phase-shifted multi-frame acquisitions and real-time Fourier power spectrum analysis for system alignment and quality control.

Key Features:

• Integration with MicroManager: Integrates with MicroManager via plugins MMSIMPlugin and MMLiveFFT to support SIM-specific acquisition and analysis.
• MMSIMPlugin: Modifies MicroManager acquisition to produce multiple frames per "frame" cycle to capture the phase-shifted images required for SIM.
• MMLiveFFT: Performs real-time power frequency spectrum analysis of live images to assist system alignment and quality control.
• Hardware synchronization: Supports synchronization between various hardware components necessary for coordinated SIM imaging.
• High-speed SLM-based SIM support: Has been used to control high-speed spatial light modulator (SLM)-based SIM systems.

Scientific Applications:

• Super-resolution imaging: Enables structured illumination microscopy to surpass the diffraction limit for enhanced spatial resolution.
• Custom-built SIM systems: Facilitates development and operation of custom SIM setups through MicroManager integration and plugin-based control.
• System alignment and quality control: Uses real-time Fourier power spectrum analysis for alignment and performance monitoring of SIM systems.
• Fluorescence imaging evaluation: Has been applied to image diverse fluorescent samples on custom SIM systems, including high-speed SLM-based setups.

Methodology:

Implements MicroManager plugins (MMSIMPlugin, MMLiveFFT) that modify acquisition to capture multiple phase-shifted frames per cycle, perform real-time power frequency (Fourier) spectrum analysis, and synchronize hardware components.