ShareLoc.XYZ
ShareLoc is an open platform for sharing single-molecule localization microscopy (SMLM) data and tools, as described in Ouyang, Bai et al. Nat Meth 2022.
New to ShareLoc?
Watch this quick overview tutorial to get you started.
Here is a specific tutorial on how to upload SMLM data
Key features of ShareLoc:
- Open repository for SMLM data and tools
- Data are stored on Zenodo, an open repository operated by CERN
- Browser-based SMLM viewer in 2D and 3D, no installation required
- Flexible ontology-based data annotation using the ontology lookup service (OLS) run by EMBL-EBI
- Open and extendable via ImJoy plugins
- Easy-to-use upload interface with file preview support
- Import various file formats
The SMLM file format
To enable faster preview and portable sharing, we developed a binary and losslessly compressed file format for storing localization tables and image patches.
For more details see: SMLM file format
ANNA PALM models trained on ShareLoc.xyz
Here you can find 4 pre-trained models that were trained on SMLM data of microtubules shared on ShareLoc.xyz:
https://www.dropbox.com/scl/fo/dkmsnshuqofut619nv7rb/h?rlkey=yvbkyythucjkpyrh1g3vlln6y&dl=0
Acknowledgements
The SMLM viewers used in ShareLoc.XYZ are adapted from the potree viewer developed by Markus Schuetz and the Fairy Dust viewer developed by Felix Woitzel (in collaboration with Christophe Leterrier).
License
The source code of the ShareLoc.XYZ platform is released under MIT license. The content hosted in ShareLoc.XYZ, including data and applications are owned by the original authors and made available according to the corresponding license specified by the authors.
Citation
If you find ShareLoc.XYZ helpful for your research, please consider citing our paper:
Ouyang, W., Bai, J., Singh, M.K. et al. ShareLoc — an open platform for sharing localization microscopy data. Nat Methods (2022). https://doi.org/10.1038/s41592-022-01659-0User Agreement
By using the ShareLoc.XYZ website and/or viewing material on the website, you agree to become bound by the terms of this User Agreement. If you do not agree to the Disclaimer, Terms of Use, and Privacy Statements of this User Agreement, do not use this website or any portion thereof in any form or manner.
Contact Us
If you have any question, please feel free to send us a private message or write a public Github issue.