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This article was motivated by the doctors' demand to make a technical support in pathologies of gastrointestinal tract research [10], which would be based on machine vision tools. Proposed solution should be less expensive alternative to already existing RF (radio frequency) methods. The objective of whole experiment was to evaluate the amount of animal motion dependent on degree of pathology (gastric ulcer). In the theoretical part of the article, several methods of animal trajectory tracking are presented: two differential methods based on background subtraction, the thresholding methods based on global and local threshold and the last method used for animal tracking was the color matching with a chosen template containing a searched spectrum of colors. The methods were tested offline on five video samples. Each sample contained situation with moving guinea pig locked in a cage under various lighting conditions., (Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.)