Point people/organizers: Sarah Aufmkolk, Joshua Moore, Nicola Neretti, Catarina Strambio De Castilla

4DN Google Drive folder:

4DN Calendar: https://wiki.4dnucleome.org/4dn:calendar_4dn

Agenda/Minutes:

Meeting attendee spreadsheet:

Email list: gsmlimagingsubgroup@4dnucleome.org

Slack channel:

“Genomic single-molecule localization data formats (GSML data formats): data sharing and format conceptualization for server-based storage”

This working group aims to support the accessibility of genomic super-resolution imaging efforts. We will focus on establishing the structure of typical OligoSTORM [1] single-molecule localization microscopy (SMLM) data, establishing clear meta-data descriptions that allow optimized analysis and data-sharing. Furthermore, we will establish pipelines exemplifying the conversion of SMLM image and localization data from the proprietary Bruker binary data format to a cloud-optimized OME-Zarr format [2] and showcase the analysis from the zarr-file format with software tools like IMGR [1].

It should be noted that this effort will support super-resolved and widefield data being acquired with Bruker Vutara or VXL microscopes, but welcomes to include other SMLM data formats!

This effort will be organized in close alliance with the Open Microscopy Environment consortium and the 4DN data repository.