semvec/pypi-packages huggingface dataset:
wormpose 1.3.0
WormPose: Image synthesis and convolutional networks for pose estimation in C. elegans
License: BSD 3-Clause License
Requires Python: >=3.6
Keywords: animal pose estimation,c. elegans

![](https://i.imgur.com/hcOUEif.png)

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![](https://i.imgur.com/4b8zz68.gif)
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<sub>Results videos adapted from [Open Worm Movement Database](http://movement.openworm.org/) license [CC 4.0](https://creativecommons.org/licenses/by/4.0/legalcode) </sub>


## Overview

The WormPose package estimates the challenging poses of C. elegans in videos including coils and overlaps. 

We train a convolutional neural network with synthetic worm images so that there is no need for human annotated labels. 

## Get started quickly
[Try the tutorial notebook](https://github.com/iteal/wormpose/blob/main/examples/tutorial_sample_data.ipynb)   <a href="https://colab.research.google.com/github/iteal/wormpose/blob/main/examples/tutorial_sample_data.ipynb" target="_parent"><img src="https://colab.research.google.com/assets/colab-badge.svg" alt="Open In Colab"/></a>

This notebook goes over the whole WormPose pipeline with some sample data and an already trained model. You can run it in Google Colab.

## Read the documentation
Check the [Documentation website](https://iteal.github.io/wormpose/index.html) for detailed instructions.

## Read the paper
[WormPose: Image synthesis and convolutional networks for pose estimation in C. elegans](https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1008914)  
Hebert L, Ahamed T, Costa AC, Oâ€™Shaughnessy L, Stephens GJ (2021) WormPose: Image synthesis and convolutional networks for pose estimation in C. elegans. PLOS Computational Biology 17(4): e1008914. https://doi.org/10.1371/journal.pcbi.1008914

## Manuscript data 
Manuscript data is available here: https://wormpose.unit.oist.jp.