Section: New Software and Platforms

FlowScope

Optical flow computation for 3D fluorescence microscopy

Keywords: Motion analysis - Fluorescence microscopy - Image analysis - Data visualization

Functional Description: The FLOWSCOPE software is able to estimate 3D motion between two fluorescence microscopy volumes. The underlying variational method amounts to minimizing an energy functional made up of two terms: a data term and a regularization term. The data term is derived from the continuous form of Census signature and the smoothness of the flow field is imposed by a L2 regularization term. The method is implemented for a single core CPU. FLOWSCOPE outputs three separate files corresponding to the motion vector components. The flow fields can be visualized with an appropriate color code named 3PHS. The 3PHS map projects the flow field onto the three orthogonal planes selected by the user. The projections of the vector field is color coded in the Hue (direction) and the Saturation (amplitude) spaces.

• Participants: Patrick Bouthemy, Charles Kervrann, Sylvain Prigent, Leo Maury and Philippe Roudot

• Partner: Danuser lab, University of Texas Southwestern, Dallas, USA

• Contact: Sandeep Manandhar

• Publication: 3D Flow Field Estimation and Assessment for Live Cell Fluorescence Microscopy

• URL: https://gitlab.inria.fr/smanandh/flowscope