TadPose: post-SLEAP analysis for tadpoles, frogs and other animals

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A Python library for post-analysis of SLEAP* pose estimation. TadPose was developed with the Sweeney and Novarino lab at ISTA (Austria). To use TadPose, the original movie and SLEAP .h5 analysis file is required.

Features

• Alignment of animals into ego-centric views
• Convenient access of original and aligned body-part locations
• Stride and gait analysis
• Image warping into ego-centric views
• Feature computations such as speed, acceleration and angles

Installation

From git master

To install the latest version from repositories master branch

pip install git+https://github.com/sommerc/tadpose.git

This requires git to be installed.

Examples notebooks

Mouse gait analysis

For this gait example, download and extract a SLEAP processed example video.

For details on the stride metrics see (Sheppard et al., 2022)

Example video for gait extraction

mouse_stride_extraction.mp4

Basic example with frogs

And follow steps in example notebook