We have integrated the Allen Institute's BioFile Finder app with IDR. You can quickly Group and Filter all images in a study. Data is served by the IDR search engine and supports up to a million images at a time. BioFile Finder links are on each study page e.g. idr.openmicroscopy.org/study/idr0056/
Dear all
Today we are releasing Bio-Formats 8.4.0 which includes a new file format as well as several fixes and improvements.
The full list of changes included in this release is on www.openmicroscopy.org/2026/01/15/b... Please use image.sc in case of questions or problems.
Idr0173: Released ahead of its publication - Early Parkinsonβs disease is defined by Ξ±-synuclein oligomer-driven aggregation susceptible cells by Breiter et al. Images in idr0173 are OME-Zarrs converted by the submitter.
idr.openmicroscopy.org/search/?quer...
Idr0168: Prediction of protein subcellular localization in single cells from www.nature.com/articles/s41... by Zhang et al. Images in idr0168 are OME-Zarrs converted by the submitter.
idr.openmicroscopy.org/search/?quer...
Two new protein localization studies available in the Image Data Resource (IDR, idr.openmicroscopy.org).
BioFile Finder allows the browsing of image thumbnails which enables launching of images in full view via a range of image viewers. We hope this is useful!
For a list of the OME-Zarr images in idr0170, see github.com/IDR/idr0170-... where the metadata can be viewed in BioFile Finder (bff.allencell.org) - use Chrome!
Example idr0170 image shown in OME-NGFF-Validator: ome.github.io/ome-ngff-val...
This public object storage access without a server is highly scalable, allowing IDR to support more users while continuing to make the data searchable and browsable through the IDR server. IDR is now increasingly requesting that all new submissions to IDR convert their data into OME-Zarr format.
This is the first study in IDR where the OME-Zarr images are loaded in OMERO using the omero-zarr-pixel-buffer extension. The data is hosted on public object storage and can be accessed directly by the many tools and viewers that support the cloud-optimised OME-Zarr format.
Idr0170: Released ahead of its publication - Imaging Mass Cytometry Dataset of Small-Cell Lung Cancer tumors and tumor microenvironments by Rose et al. Images in idr0170 are OME-Zarrs converted by the submitter.
idr.openmicroscopy.org/search/?quer...
New Imaging Mass Cytometry data in the Image Data Resource (IDR, idr.openmicroscopy.org).
Dear all
Today we are releasing Bio-Formats 8.3.0 which includes several fixes and improvements.
The full list of changes included in this release are on www.openmicroscopy.org/2025/08/05/b.... Please use image.sc in case of questions or problems.
New landing pages have landed for every study in the Image Data Resource (IDR)!
Now, you can easily see clear details of the study - including how to download the data!
To access the landing page for a study, just click on its thumbnail from the homepage (idr.openmicroscopy.org).
New study released in the Image Data Resource (IDR, idr.openmicroscopy.org) today!
An embryonic patterning study from elifesciences.org/articles/78902 by Clark et al.
idr.openmicroscopy.org/search/?quer...
The #globalbioimaging couse at IISER Pune continued with an intense and well-received OMERO workshop part 1. The parts 2 and 3 of the OMERO workshoop to come tomorrow.
On the #globalbioimaging course globalbioimaging.org/internationa... at IISER Pune, India, the discussions go on after the talk about Microscopy Facility Data Management strategies.
Screenshot of the PDF available at https://cloud.gerbi-gmb.de/s/6LrYfMByymPnHP5/download/2025_OME-Zarr_sw_developer.pdf
Screenshot of the PDF available at https://cloud.gerbi-gmb.de/s/y4rBGFM6dXn8Jkr/download/2025_OME-Zarr_web_developer.pdf
π Weβre hiring again! Join @gerbi-gmb.de as a Software Developer!
π» Build scalable #bioimaging solutions
π Collaborate globally
π― Contribute to open science through #OME #Zarr
π£ Tell your #NGFF friends.
Remote, full-time. Apply by 30 June 2025: All submissions via bit.ly/gerbi-jobs-2...
π€©
On #ELMI2025 an ad-hoc Question&Answer session on OMERO went very well, lively discussion with lot of tips on finding the optimal path to successful OMERO adoption in an Institution.
Dear all
Today we are releasing Bio-Formats 8.2.0 which includes several fixes and improvements.
The full list of changes included in this release are on www.openmicroscopy.org/2025/05/28/b.... Please use image.sc in case of questions or problems.
New release: napari-omero 0.5.0 π@openmicroscopy.org @napari.org thanks to some big contributions from @psobolewskiphd.bsky.social , @will-j-moore.bsky.social and of course @talley.codes. Some features in spotlight π
First: napari-omero now supports lazy loading of image pyramids from OMEROπΊ:
3. Gene expression data from onlinelibrary.wiley.com/doi/10.1111/... by Alzu'bi et al.
idr.openmicroscopy.org/search/?quer...
2. A morphology and secretome map of pyroptosis from the recently published www.molbiolcell.org/doi/10.1091/... by Lippincott et al.
idr.openmicroscopy.org/search/?quer...
Take a look at the three new studies released in the Image Data Resource (IDR, idr.openmicroscopy.org).
1. 3D-SIM data from www.nature.com/articles/s41... by Szabo et al.
idr.openmicroscopy.org/search/?quer...
If you train people in ImageJ, Fiji, whatever, even if it isn't your day job, please let us know, and please share this post! Thanks a ton, we really appreciate it. (2/2) forms.gle/C8dUpg8qZkbD... #bioimaging #microscopy #bioimageanalysis
ππ§ͺ We're coming to the East Coast!
We're proud to be a part of the @openmicroscopy.org Environment Community Meeting at @mblscience.bsky.social on Apr. 28 to May 1.
ποΈ Register by Mar. 17 to join us in person: www.bioimagingnorthamerica.org/events/ome-2...
@bioimagingna.bsky.social
Dear all
Today we are releasing Bio-Formats 8.1.1 which includes several fixes and improvements.
The full list of changes included in this release are on [the openmicroscopy website](www.openmicroscopy.org/2025/03/05/b...). Please use image.sc in case of questions or problems.
2. Large-scale hyperspectral #electronmicroscopy data from www.nature.com/articles/s44... by Duinkerken et al.
idr.openmicroscopy.org/search/?quer...
