Computational NeuroscienceHelioScan: A software framework for controlling in vivo microscopy setups with high hardware flexibility, functional diversity and extendibility

Intravital microscopy such as in vivo imaging of brain dynamics is often performed with custom-built microscope setups controlled by custom-written software to meet specific requirements. Continuous technological advancement in the field has created a need for new control software that is flexible enough to support the biological researcher with innovative imaging techniques and provide the developer with a solid platform for quickly and easily implementing new extensions. Here, we introduce HelioScan, a software package written in LabVIEW, as a platform serving this dual role. HelioScan is designed as a collection of components that can be flexibly assembled into microscope control software tailored to the particular hardware and functionality requirements. Moreover, HelioScan provides a software framework, within which new functionality can be implemented in a quick and structured manner. A specific HelioScan application assembles at run-time from individual software components, based on user-definable configuration files. Due to its component-based architecture, HelioScan can exploit synergies of multiple developers working in parallel on different components in a community effort. We exemplify the capabilities and versatility of HelioScan by demonstrating several in vivo brain imaging modes, including camera-based intrinsic optical signal imaging for functional mapping of cortical areas, standard two-photon laser-scanning microscopy using galvanometric mirrors, and high-speed in vivo two-photon calcium imaging using either acousto-optic deflectors or a resonant scanner. We recommend HelioScan as a convenient software framework for the in vivo imaging community.

► HelioScan, a software framework for vivo microscopy control applications, written in the LabVIEW environment, is introduced. ► HelioScan application assembles at run-time from configurable software components and provides high flexibility and easy extendibility. ► We present four use cases demonstrating HelioScan's capabilities, in particular with regard to recent trends in the field of in vivo calcium imaging. ► A variety of imaging modalities are supported (video camera, galvanometric scan mirrors, acousto-optic deflectors, resonant scanners). ► We recommend HelioScan as a convenient software framework for the in vivo imaging community.