2.5 Imaging processing and analysis
Imaging post-processing was performed using FIJI (Schindelin et al.,
2012), InkScape 0.91 (https://inkscape.org), and MATLAB Image
Processing Toolbox (Mathworks, Natick, Massachusetts, USA,
www.mathworks.com). Simplified biofilm
geometries were created and input into the model (see SI). The
displacements of biofilms in both experiments and modeling were obtained
using digital image correlation (DIC) (see SI). The DIC code was
modified from Eberl et al. (2006). The relative error between the
experimental and modeling results was calculated as\(\frac{\Sigma(\left|D_{m}-D_{e}\right|)}{\Sigma(D_{e})}\times 100\%\ \)by a summation of every second data for the three tracking lines (shown
in Fig. 7 and 9), where Dm is the displacement in the
model and De is the displacement in the experiment.