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Thoughts on technology in the image data management industry

blog posts by Glencoe Software

What’s New in Glencoe Software’s NGFF-Converter 2.0

Glencoe Software are happy to announce the latest release of NGFF-Converter. Thanks to our customers and those in the bioimaging community for your use of and feedback on this tool for the conversion of bioimaging data into the open standard formats OME-NGFF and OME-TIFF.

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Optimizations for reading cloud-native bioimaging data with OME-Zarr

Since the original release of the specification for the Next Generation File Format (NGFF) OME-Zarr, Glencoe Software has been dedicated to building implementations of these concepts. Now has come the time to optimize for the particular requirements of bio-imaging data and the ways we work with it.

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Advances in multimodal image data management in OMERO Plus: connecting tissues, cells, sequences, and features

Glencoe Software recently presented the latest use cases for OMERO Plus at SLAS in Boston, and here we highlight in detail new solutions for Spatial Transcriptomics data management and mining.

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How data structure impacts the scalability of bioimaging workflows

In a recent workshop on tissue clearing, hosted at the Harvard Center for Biological Imaging, we spoke about considerations for the structure of imaging data within the OME-Zarr file format which can impact analysis and visualization workflows, in particular for multi TB lightsheet or other 3D imaging acquisitions.

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What’s New in Glencoe Software’s PathViewer 3.9.0

We are happy to release PathViewer 3.9.0, which includes new features and performance improvements. Whether you’re focused on streamlined viewing, annotation, or data mining, we believe this update will improve your workflows with PathViewer.

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What’s New in Glencoe Software’s OMERO Plus

The latest OMERO Plus release includes both new features and performance improvements.

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What’s New in Glencoe Software’s Bio-Formats 7.1.0-651

We are excited to announce the release of Glencoe Software’s Bio-Formats 7.1.0, which includes everything in open source Bio-Formats 7.1.0 from the Open Microscopy Environment.

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Glencoe Software Product Roadmap 2024

As another year of data management comes to a close, we at Glencoe Software are reflecting on the successes achieved this year and the exciting challenges we will address in the upcoming year.

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Pre-built Ice binaries for OMERO

Glencoe Software is pleased to announce a set of pre-built Ice 3.6 binaries and wheel packages available for the deployment of OMERO server and clients.

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What’s New in Glencoe Software’s OMERO Plus

The latest OMERO Plus release includes both new features as well as important dependency upgrades.

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What’s New in Glencoe Software’s Bio-Formats 7.0.0-624

We are excited to announce the release of Glencoe Software’s Bio-Formats 7.0.0-624, which includes everything in open source Bio-Formats 7.0.0 from the Open Microscopy Environment.

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Open-Source Image Analysis Connectivity for OMERO

Glencoe Software presents updated interoperability between OMERO and open-source image analysis tools, such as CellProfiler.

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blog posts by Glencoe Software

What’s New in Glencoe Software’s PathViewer 3.8.0

We are thrilled to release PathViewer 3.8.0, which includes new features, bug fixes and performance improvements. Whether you’re focused on handling highly multiplexed images or seeking streamlined RGB visualisation controls, we believe this update will improve your workflows with PathViewer.

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blog posts by Glencoe Software

What’s New in Glencoe Software’s OMERO Plus

Glencoe Software is pleased to announce a variety of new features added to the latest OMERO Plus release - including support for channel histograms, improved version reporting, and support for Bio-Formats 6.13.

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What’s New in Glencoe Software’s Bio-Formats 6.13.0-585

We are excited to announce the release of Glencoe Software’s Bio-Formats 6.13.0-585, which includes everything in open source Bio-Formats 6.13.0 from the Open Microscopy Environment.

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What’s New in Glencoe Software’s NGFF-Converter 1.1.5

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Updates to OMERO Plus support on CentOS/RHEL/Ubuntu

Glencoe Software will stop providing support for upgrades to OMERO Plus installations on CentOS 7 and RHEL 7 on June 30, 2024 and is no longer supporting upgrades to installations on Ubuntu 16.04 and 18.04.

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What’s New in Glencoe Software’s PathViewer 3.7.0

We’re thrilled to announce the release of PathViewer 3.7.0, packed with new features to enhance usability and efficiency. This update includes significant improvements such as an option to disable pixel interpolation, performance improvements for label images, and several other enhancements!

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Synchronizing the data science workflow with data management at scale

Glencoe Software presents the omero2pandas package, designed to integrate with popular Python data science tools and enable analysis workflows which utilize tabular data stored on an OMERO server.

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Publishing data with OMERO Plus

Modern science is a global practice. Academic collaborations, multinational corporations, and national labs are all examples where science performed in a single location must be shared or published across the world. While the definition of data publishing might differ for these various entities, the complexity and challenge of sharing GByte- and TByte-sized imaging datasets along with essential metadata and analytics are common problems shared by all.

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What’s New in Glencoe Software’s OMERO Plus

Glencoe Software is pleased to announce a variety of new features added to the latest OMERO Plus release - including improved support for cloud storage, single sign-on, and analytical data mining workflows.

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What’s New in Glencoe Software’s PathViewer 3.6.0

We’re excited to announce the latest release of PathViewer 3.6.0 with several new features aimed at improving user experience and productivity. These features include advanced rendering options and new keyboard shortcuts for image navigation!

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What’s New in Glencoe Software’s NGFF-Converter 1.1.4

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What’s New in Glencoe Software’s PathViewer 3.5.0

What’s New in Glencoe Software’s PathViewer 3.5.0

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blog posts by Glencoe Software

Glencoe Software Product Roadmap 2023

As the year comes to a close, Glencoe Software is looking back on the progress made in 2022 and how this lays the foundation for an exciting product roadmap for 2023. First, we summarize some key challenges and how our technology developments in 2022 aim to address them. Then, we propose our product roadmap for 2023 and its basis in these core technologies. As always, we look forward to your feedback.

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blog posts by Glencoe Software

Utilising OME-NGFF to achieve scalable cloud-based analysis with CellProfiler

Glencoe Software presents findings on scalability of image analysis workflows in the cloud using OMERO Plus, OME-NGFF, and CellProfiler

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What’s New in Glencoe Software’s PathViewer 3.4.0

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What’s New in Glencoe Software’s PathViewer 3.3.5

What’s New in Glencoe Software’s PathViewer 3.3.5

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Beyond images with OME-NGFF

OME-NGFF is a data format technology that addresses the demands of image processing workflows at scale and in the cloud.

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OME-NGFF in action

Glencoe Software, the Open Microscopy Environment, and other members of the bioimaging community recently published a paper in Nature Methods describing the motivations and specification for the “Next-Generation” of open image formats like OME-TIFF. Here, we highlight Glencoe Software’s perspective on and ongoing work toward adopting and advancing Next-Generation File Formats (NGFF).

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What’s New in Glencoe Software’s PathViewer 3.3

What’s New in Glencoe Software’s PathViewer 3.3

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blog posts by Glencoe Software

Converting Whole Slide Images to OME-TIFF: A New Workflow

Glencoe Software and the OME team are pleased to announce a new collection of command line tools for converting whole slide images to pyramidal OME-TIFF.

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Open Data for Digital Pathology

Digital pathology is rapidly growing and also evolving, with many new innovations and capabilities appearing weekly.

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Farewell, JCB DataViewer

Glencoe Software is proud of its contribution to making the JCB DataViewer serve as a prime example of the value of open image data.

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blog posts by Glencoe Software

Driving Digital Pathology Innovation - What’s Next?

What’s the next big advancement in digital pathology? We think it centers around multiplexed imaging and improved data management. Read on.

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blog posts by Glencoe Software

March Technology Focus

Some thoughts from our VP of Software Engineering regarding the future of PathViewer and OMERO Plus for Digital Pathology

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Thoughts on Blog Posts and the Life Science Imaging Industry

Any topics you think we should blog about?