Table 1 Image analysis parameters and their mathematical description
From: Dynamic biospeckle analysis, a new tool for the fast screening of plant nematicide selectivity
Term | Definition | Formula |
|---|---|---|
Speckle | Spike in light intensity captured by the camera and created by light interference in a heterogeneous medium | Â |
Biospeckle | The dynamic speckle generated by living organisms. Speckle can be created by internal, cellular processes or body movement. Biospeckle data are in the form of 3D volume data, namely a set of voxels Ω with width (w), height (h) and depth (d), resulting from the BSPIM system | \(\Omega ={\left\{{X}_{j}\right\}}_{j<w\times h\times d}\) |
BSPIM | Biospeckle Selective Plane Illumination Microscopy; an imaging method that quantifies the activity of biological organisms within 3D volumes through the analysis of dynamic speckle | Â |
Detected biospeckle object | A subset of the volume image data generated by BSPIM. The subset is a connected region detected above background noise. The ith detected object is a subset Ωi | Ωi |
Biospeckle volume | Number of voxels in the ith object | \({N}_{i}=n\left({\Omega }_{i}\right)\) |
Biospeckle intensity | Mean of grey values Xj of the ith detected biospeckle object. Specific to each nematode | \({I}_{i}=\frac{1}{{N}_{i}}{\sum }_{{X}_{j}\in {\Omega }_{i}}{X}_{j}\) |
Total Biospeckle Intensity | Sum of mean object intensities. Gives the total biospeckle intensity for the whole sample | \(\mu =\sum {I}_{i}\) |
Biospeckle pattern | Distribution (position and intensity of pixels) of a detected biospeckle object Ωi. Patterns can be described by several parameters such as intensity, area, volume and circularity |  |
Biospeckle area | A set of connected pixels in the 2D plane maximizing the surface area of the detected biospeckle object | \(S={A}_{k}\) |
Circularity of biospeckle area | Circularity of fitted convex hull of surface area S and perimeter P | \({C}_{A}=4\pi S/{P}^{2}\) |