CytoSeg 2.0: automated extraction of actin filaments.

MOTIVATION: Actin filaments are dynamic structures that substantially change their organization over time. The dynamic behavior and the relatively low signal-to-noise ratio during live-cell imaging have rendered the quantification of the actin organization a difficult task. RESULTS: We developed an automated image-based framework that extracts actin filaments from fluorescence microscopy images and represents them as networks, which are automatically analyzed to identify and compare biologically relevant features. While the source code is freely available, we have now implemented the framework into a graphical user interface that can be installed as a Fiji plugin, thus enabling easy access by the research community. AVAILABILITY AND IMPLEMENTATION: CytoSeg 2.0 is open-source software under the GPL and is available on Github: https://github.com/jnowak90/CytoSeg2.0. SUPPLEMENTARY INFORMATION: Supplementary information and test datasets are provided on Github.