PixAnalyzer calculates pixel changes and quantifies the overall motion, which cannot be quantified by tracking or object recognition.
"PixAnalyzer" is a tool designed to quantify the changes in deformation and movement of an object by measuring the changes in pixel count in an image. Historically, it was challenging to quantify phenomena such as the deformation of an object's overall shape due to difficulties associated with tracking. To address this, we developed a GUI-based software inspired by the method used in P. Solari et al., 2017 that analyzed the deformation of the Drosophila crop. In our analysis, by setting a specific brightness threshold, only the deformation of the target object is captured. Furthermore, the software provides a graph depicting the pixel change for each frame and exports this data in Excel format.
Step2: Install Anaconda
In Anacnda prompt
conda env create -f <path/to/environment.yml>
In Anacnda prompt
conda acitate pixanalyzer
pip install pixanalyzer
In Anacnda prompt
conda acitate pixanalyzer
pixanalyzer
It is recommended that the threshold be set so that the contours of the object are clearly observed and the background is eliminated as much as possible.
After analysis, graphs showing the time series of pixel change results, a heatmap, an exel file of the results, and a json file of the configuration values are output.
In the "sampledata" folder, there are analyze sample_jumping_spyder_video.mp4 and other figures.
We thanks for PhD. Ryoya Tanaka for discussing.
- 2023/10/XX First release (Ver. 1.0)
If you have any feedback, please reach out to us by:
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Opening an issue in the repository
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E-mail: haya.m.yamano.neuro@gmail.com