Image Processing

To process and get information from the time-lapses we develop a tool called  \(\mu\)(available here) that consists mostly in scripts in ImageJ\cite{Schneider_2012} macro language to process and organize the images,  the we use DeepCell\cite{Van_Valen_2016} a deep learning strategy to generate masks, and some other python [ref] scripts to visualize the data. The overall process could be  generally described in the next series of steps: 1) Order the archives produced by the NIS Elements software. 2) Align traps. 3) Generate a segmentable image. 4) Perform segmentation with DeepCell. 5) Clean the masks. 6) Manual correction of the masks. 7) Substract information and generate data 8) Analyze and visualize data.