references.bib

@article{Kane2020,
  doi = {10.7554/elife.61909},
  url = {https://doi.org/10.7554/elife.61909},
  year = {2020},
  month = dec,
  publisher = {{eLife} Sciences Publications,  Ltd},
  volume = {9},
  author = {Gary A Kane and Goncalo Lopes and Jonny L Saunders and Alexander Mathis and Mackenzie W Mathis},
  title = {Real-time,  low-latency closed-loop feedback using markerless posture tracking},
  journal = {{eLife}}
}

@article{Sturman2020,
  title={Deep learning-based behavioral analysis reaches human accuracy and is capable of outperforming commercial solutions},
  author={Sturman, Oliver and von Ziegler, Lukas and Schl{\"a}ppi, Christa and Akyol, Furkan and Privitera, Mattia and Slominski, Daria and Grimm, Christina and Thieren, Laetitia and Zerbi, Valerio and Grewe, Benjamin and others},
  journal={Neuropsychopharmacology},
  volume={45},
  number={11},
  pages={1942--1952},
  year={2020},
  publisher={Nature Publishing Group}
}

@article{Anderson2014,
  doi = {10.1016/j.neuron.2014.09.005},
  url = {https://doi.org/10.1016/j.neuron.2014.09.005},
  year = {2014},
  month = oct,
  publisher = {Elsevier {BV}},
  volume = {84},
  number = {1},
  pages = {18--31},
  author = {David~J. Anderson and Pietro Perona},
  title = {Toward a Science of Computational Ethology},
  journal = {Neuron}
}

@article{Wiltschko2015,
  doi = {10.1016/j.neuron.2015.11.031},
  url = {https://doi.org/10.1016/j.neuron.2015.11.031},
  year = {2015},
  month = dec,
  publisher = {Elsevier {BV}},
  volume = {88},
  number = {6},
  pages = {1121--1135},
  author = {Alexander~B. Wiltschko and Matthew~J. Johnson and Giuliano Iurilli and Ralph~E. Peterson and Jesse~M. Katon and Stan~L. Pashkovski and Victoria~E. Abraira and Ryan~P. Adams and Sandeep~Robert Datta},
  title = {Mapping Sub-Second Structure in Mouse Behavior},
  journal = {Neuron}
}

@article{Nath2019,
  doi = {10.1038/s41596-019-0176-0},
  url = {https://rdcu.be/bHpHN},
  year = {2019},
  month = jun,
  publisher = {Springer Science and Business Media {LLC}},
  volume = {14},
  number = {7},
  pages = {2152--2176},
  author = {Tanmay Nath and Alexander Mathis and An Chi Chen and Amir Patel and Matthias Bethge and Mackenzie Weygandt Mathis},
  title = {Using {DeepLabCut} for 3D markerless pose estimation across species and behaviors},
  journal = {Nature Protocols}
}

@article{Mathis2020,
  doi = {10.1016/j.neuron.2020.09.017},
  url = {https://doi.org/10.1016/j.neuron.2020.09.017},
  year = {2020},
  month = oct,
  publisher = {Elsevier {BV}},
  volume = {108},
  number = {1},
  pages = {44--65},
  author = {Alexander Mathis and Steffen Schneider and Jessy Lauer and Mackenzie Weygandt Mathis},
  title = {A Primer on Motion Capture with Deep Learning: Principles,  Pitfalls,  and Perspectives},
  journal = {Neuron}
}

@article{Lauer2022,
  doi = {10.1038/s41592-022-01443-0},
  url = {https://doi.org/10.1038/s41592-022-01443-0},
  year = {2022},
  month = apr,
  publisher = {Springer Science and Business Media {LLC}},
  volume = {19},
  number = {4},
  pages = {496--504},
  author = {Jessy Lauer and Mu Zhou and Shaokai Ye and William Menegas and Steffen Schneider and Tanmay Nath and Mohammed Mostafizur Rahman and Valentina Di Santo and Daniel Soberanes and Guoping Feng and Venkatesh N. Murthy and George Lauder and Catherine Dulac and Mackenzie Weygandt Mathis and Alexander Mathis},
  title = {Multi-animal pose estimation,  identification and tracking with {DeepLabCut}},
  journal = {Nature Methods}
}

@article{Mathis2018,
  doi = {10.1038/s41593-018-0209-y},
  url = {https://doi.org/10.1038/s41593-018-0209-y},
  year = {2018},
  month = aug,
  publisher = {Springer Science and Business Media {LLC}},
  volume = {21},
  number = {9},
  pages = {1281--1289},
  author = {Alexander Mathis and Pranav Mamidanna and Kevin M. Cury and Taiga Abe and Venkatesh N. Murthy and Mackenzie Weygandt Mathis and Matthias Bethge},
  title = {{DeepLabCut}: markerless pose estimation of user-defined body parts with deep learning},
  journal = {Nature Neuroscience}
}

@article{Cregg2020,
  doi = {10.1038/s41593-020-0633-7},
  url = {https://doi.org/10.1038/s41593-020-0633-7},
  year = {2020},
  month = may,
  publisher = {Springer Science and Business Media {LLC}},
  volume = {23},
  number = {6},
  pages = {730--740},
  author = {Jared M. Cregg and Roberto Leiras and Alexia Montalant and Paulina Wanken and Ian R. Wickersham and Ole Kiehn},
  title = {Brainstem neurons that command mammalian locomotor asymmetries},
  journal = {Nature Neuroscience}
}

@article{tuia2022perspectives,
  title={Perspectives in machine learning for wildlife conservation},
  author={Tuia, Devis and Kellenberger, Benjamin and Beery, Sara and Costelloe, Blair R and Zuffi, Silvia and Risse, Benjamin and Mathis, Alexander and Mathis, Mackenzie W and van Langevelde, Frank and Burghardt, Tilo and others},
  journal={Nature communications},
  volume={13},
  number={1},
  pages={1--15},
  year={2022},
  publisher={Nature Publishing Group}
}

@article{GomezMarin2019,
  doi = {10.1016/j.neuron.2019.09.017},
  url = {https://doi.org/10.1016/j.neuron.2019.09.017},
  year = {2019},
  month = oct,
  publisher = {Elsevier {BV}},
  volume = {104},
  number = {1},
  pages = {25--36},
  author = {Alex Gomez-Marin and Asif A. Ghazanfar},
  title = {The Life of Behavior},
  journal = {Neuron}
}

@article{Mathis2020CurrOpinion,
  doi = {10.1016/j.conb.2019.10.008},
  url = {https://doi.org/10.1016/j.conb.2019.10.008},
  year = {2020},
  month = feb,
  publisher = {Elsevier {BV}},
  volume = {60},
  pages = {1--11},
  author = {Mackenzie Weygandt Mathis and Alexander Mathis},
  title = {Deep learning tools for the measurement of animal behavior in neuroscience},
  journal = {Current Opinion in Neurobiology}
}


@inproceedings{mathis2021pretraining,
  title={Pretraining boosts out-of-domain robustness for pose estimation},
  author={Mathis, Alexander and Biasi, Thomas and Schneider, Steffen and Yuksekgonul, Mert and Rogers, Byron and Bethge, Matthias and Mathis, Mackenzie W},
  booktitle={Proceedings of the IEEE/CVF Winter Conference on Applications of Computer Vision},
  pages={1859--1868},
  year={2021}
}


@inproceedings{he2016deep,
  title={Deep residual learning for image recognition},
  author={He, Kaiming and Zhang, Xiangyu and Ren, Shaoqing and Sun, Jian},
  booktitle={Proceedings of the IEEE conference on computer vision and pattern recognition},
  pages={770--778},
  year={2016}
}

@article{russakovsky2015imagenet,
  title={Imagenet large scale visual recognition challenge},
  author={Russakovsky, Olga and Deng, Jia and Su, Hao and Krause, Jonathan and Satheesh, Sanjeev and Ma, Sean and Huang, Zhiheng and Karpathy, Andrej and Khosla, Aditya and Bernstein, Michael and others},
  journal={International journal of computer vision},
  volume={115},
  number={3},
  pages={211--252},
  year={2015},
  publisher={Springer}
}


@inproceedings{Joska2021,
  title={AcinoSet: a 3D pose estimation dataset and baseline models for Cheetahs in the wild},
  author={Joska, Daniel and Clark, Liam and Muramatsu, Naoya and Jericevich, Ricardo and Nicolls, Fred and Mathis, Alexander and Mathis, Mackenzie W and Patel, Amir},
  booktitle={2021 IEEE International Conference on Robotics and Automation (ICRA)},
  pages={13901--13908},
  year={2021},
  organization={IEEE}
}

@article{ye2022panoptic,
  title={Panoptic animal pose estimators are zero-shot performers},
  author={Ye, Shaokai and Mathis, Alexander and Mathis, Mackenzie Weygandt},
  journal={arXiv preprint arXiv:2203.07436},
  year={2022}
}

@article{wang2021deep,
  title={Deep 3D human pose estimation: A review},
  author={Wang, Jinbao and Tan, Shujie and Zhen, Xiantong and Xu, Shuo and Zheng, Feng and He, Zhenyu and Shao, Ling},
  journal={Computer Vision and Image Understanding},
  volume={210},
  pages={103225},
  year={2021},
  publisher={Elsevier}
}

@misc{ye2023superanimal,
      title={SuperAnimal pretrained pose estimation models for behavioral analysis}, 
      author={Shaokai Ye and Anastasiia Filippova and Jessy Lauer and Maxime Vidal and Steffen Schneider and Tian Qiu and Alexander Mathis and Mackenzie Weygandt Mathis},
      year={2023},
      eprint={2203.07436},
      archivePrefix={arXiv},
      primaryClass={cs.CV}
}