This project is based on the detection, monitoring and subsequent analysis of the motions of living organisms using computer vision techniques. The objective is to study the daphnia magna specimens’ moving, invertebrate planktonic organisms which change their behaviour under different variations in their environment. To solve the diverse issues arising the addressed problem we have used three different algorithms. In first place, to detect organisms, we used the Gaussian Laplacian operator. Then to track the daphnia we used the Kalman Filters which combined with the Hungarian algorithm has allowed us to solve the allocation problem step by step. The code has been developed in the Matlab platform using the tools that it already incorporates, like Guide for the creation of the graphical interface or the different precompiled algorithms used for the treatment of images. Within the project, to achieve better results by obtaining good images, we have designed and built a fastening structure for all the filming elements. Finally, a set of tools has been added to treat the results, adapting those tools to the Institute of Environmental Diagnosis and Water Studies (IDAEA-CSIC) in order to provide the research team with a useful tool for their studies.