custom matlab sorting code  (MathWorks Inc)

Journal: bioRxiv

Article Title: An open source microfluidic sorter for Caenorhabditis nematodes

doi: 10.1101/780502

Figure Lengend Snippet: The fluid in both layers of the sorter are pressure controlled. The flow layer is pressurized constantly during a sorting run (~10 psi), while the control layer can alternate between 0 and ~30 psi. The pressure state of the control layer is determined by the MATLAB code, which controls the open/closed state of the valves in the valve terminal (Festo, S5) via the valve controller (WAGO, S5). When a valve in the valve terminal opens it pressurizes a control layer channel, causing the septum dividing the control layer channel from its associated flow layer channel to distend into the flow layer. This distension acts as a microfluidic valve, blocking flow at that point in the flow layer.

Article Snippet: S6: Code Scenario A. MATLAB sorting code for separating labeled pharynx and coelomocytes nematodes from each other.

Techniques: Control, Blocking Assay

Journal: bioRxiv

Article Title: An open source microfluidic sorter for Caenorhabditis nematodes

doi: 10.1101/780502

Figure Lengend Snippet: (A) Brightfield image of a worm in the imaging channel, the selected region of interest, and the GFP image to be processed by the custom MATLAB code (S6-8). (B) The image is first converted to a black and white image. Shown are four converted images using a range of thresholds from 0.3-0.005. (C) Images are then processed to connect nearby white pixels. Shown is the image processed with a black/white threshold of 0.1, with connection parameters of 1, 3, and 5. (D) Centroids for each contiguous patch of white pixels is determined, centroid number is counted, and distance between the two furthest centroids is measured.

Article Snippet: S6: Code Scenario A. MATLAB sorting code for separating labeled pharynx and coelomocytes nematodes from each other.

Techniques: Imaging