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deepakkrishnamurthy authored Jun 3, 2021
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# Scale-free Vertical Tracking Microscopy (aka Gravity Machine)

<p align="center">
<img src="tracking_planktonic_larvae.gif" alt="animated" />
<img src="https://github.com/deepakkrishnamurthy/gravitymachine-misc/blob/c90dee90b29576826da3b59f27a87a383417460f/snail.gif" alt="animated" />
</p>

Gravity Machine is a new paradigm in tracking microscopy invented by [Krishnamurthy et al.](https://www.nature.com/articles/s41592-020-0924-7) that uses a "hydrodynamic treadmill for single cells" to track microscale organisms like marine plankton over theoretically infinite scales in the vertical direction while maintaining microscale resolution. In this repo we share the software (Python) and firmware (C++) for running Gravity Machine. This is jointly developed with other open-microscopy platforms, specifically [Octopi](https://github.com/hongquanli/octopi-research) and [SQUID](https://github.com/prakashlab/squid-tracking) being developed at the [Prakash lab, Stanford](https://github.com/prakashlab). The repo documents both legacy and current versions of the code-base. As we move towards an initial release, kindly watch this space for updates!
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To explore more visit the [Gravity Machine website](https://gravitymachine.org/) and our associated [data-gallery](https://gravitymachine.org/gallery) of the first-ever multi-scale plankton tracks.

<p align="center">
<img src="https://github.com/deepakkrishnamurthy/gravitymachine-research/blob/77954501d28fe29b6daffba4cdd72f2979bc67ac/Volvox_20x_1hour_track_abridged.gif" alt="animated" />
<img src="https://github.com/deepakkrishnamurthy/gravitymachine-misc/blob/44969a10a4d9e9104ebcb424e8354a98fb624db1/Volvox_20x_1hour_track_abridged.gif" alt="animated" />
</p>
<p align="center">
<em> Gravity machine can be used to track free-swimming single cells and organisms over long length and time-scales. Shown above is a tracking demonstration of a single algal colony (Volvox sp. ~250um in size) tracked for ~ 1 hour as it swims up by 2.5 meters! </em>
<em> Gravity machine can be used to track free-swimming single cells and organisms over long length and time-scales. Shown above is a tracking demonstration of a single algal colony (Volvox sp. ~250um in size) tracked for ~ 1 hour as it swims up by 2.5 meters (10000 body lengths)! </em>
</p>

## Getting Started
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