Apparently, 🐟 cells are not at all different from herds of 🦓! Great use of #inTRACKtive on very different types of data. Thanks Niko, for trying it out and getting it working already 'during’ my talk 😮

Happy to be in London for #CBIAS2025! Looking forward to two days of image analysis, and presenting #inTRACKtive and #Ultrack tomorrow 🔬😊

Had a great time in Janelia this summer developing #geff with this amazing group of cell tracking enthousiasts and software engineers! #geff is a file format for tracking data allowing universal cross-tool communication for a wealth of tracking tools, amongst others our #ultrack and #inTRACKtive 🚀

🍾What a day 🥳 Two papers of the Royer lab in Nature Methods today, including #inTRACKtive! Check out Loïc's thread below for the details ⬇️

Over the next days, I will share the exciting new features we have added since the original preprint. Stay tuned!

Sunny San Diego view

Happy to be in sunny☀️San Diego for ASCB Cell Bio! Tomorrow I will present #Ultrack and #inTRACKtive (poster B513) at 11:15 am. Swing by the CZI+@czbiohub.bsky.social
booth (#119) for live demos of these tools + #napari & #zebrahub 🐠 Looking forward to connect!🤩🧪🔬

#CellBio2024 #ASCB24 #celltracking

15/ ☎️ If you want to contribute to this project, have a cool dataset that we can feature in the Virtual Embryo Zoo, or need help with cell tracking (with #ultrack), feel free to reach out! More features of #inTRACKtive are on their way, so stay tuned 🤗

inTRACKtive preprint header, including all authors

11/ 🙌 All credits to the amazing team that made #inTRACKtive and the virtual embryo zoo happen: Ashley Anderson, Andrew Sweet, Erin Hoops, Connor Larsen, Kyle Awayan, Jordão Bragantini, Chi-Li Chiu, and Loïc Royer

10/ 🛜 The #inTRACKtive platform is open source (github.com/royerlab/inT...) and has multiple use cases: (i) to explore the Virtual Embryo Zoo, (ii) to visualize your own cell tracking data, 2D or 3D, and (iii) to host your own customizable instance of the viewer.

9/ 🔗 With #inTRACKtive, your exact viewing configuration - cells, zoom level, selections, and more - can be shared via a simple hyperlink. Collaboration has never been easier! 👩‍🔬

8/ 📱 #inTRACKtive works in any browser, including on tablets and smartphones, offering flexibility in how users interact with the data. A larger screen and keyboard are recommended to utilize the full UI functionalities.

inTRACKtive uses a specialized Zarr format to save the cell tracking data. This format allows for fast asynchronous lazy loading.

7/ 🤖 The #inTRACKtive platform is optimized for interaction with large-scale datasets. The key innovation is using a specialized cell tracking format based on #Zarr, which enables asynchronous, lazy data loading. We provide scripts to convert tracking data into the required Zarr format.

6/ 🏆 Within the Virtual Embryo Zoo, users can visualize the tracked datasets with #inTRACKtive, download the complete tracking data (ready to visualize in #napari) and see details of the datasets.

4/ 🐟 #inTRACKtive can handle enormous cell tracking datasets, like the zebrafish datasets from zebrahub.org, with 10-thousands of cells over hundreds of frames.

3/ ⭐️ #inTRACKtive enables researchers to visualize, analyze, and share cell-tracking datasets – in real-time, in your browser, without downloading any file. You can select specific groups of cells and trace their lineages interactively through time, perfect for virtual fate-mapping experiments! 💻📊

inTRACKtive - cell tracking dataset is a problem for accessibility

2/ 💻 The size and complexity of microscopy datasets, spanning terabytes and thousands of cells, require expertise and resources, which limits accessibility. We present #inTRACKtive: a user-friendly web-based client-side solution for visualizing and interacting with large cell tracking datasets.

🚀Thrilled to announce #inTRACKtive: a web-based tool for exploring massive cell-tracking datasets, no software installation required! Open your browser and dive into terabytes of developmental biology data 🐭🪰🪱🪲🐠

Preprint:
biorxiv.org/content/10.1...

Repository:
github.com/royerlab/inT...

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