Update from feeds: https://galaxyproject.org/news/2024-11-08-galaxy-imaging-fair-pipelines/ #144
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👋 Hello! I'm your friendly social media assistant. Below are the previews of this post: mastodon-eu-freiburg📝 New blog post Released! The Helmholtz Metadata Conference (HMC) 2024 The Helmholtz Metadata Collaboration (HMC) focuses on enhancing research held virtually in Gather Town from November Building FAIR Bioimage Pipelines with Galaxy In the “workflow” session, I presented the application of Galaxy to develop structure. (4/9) Integrating OMERO and Galaxy During the conference, I discussed integrating OMERO’s upload and image or retrieval, making it simple Combining Image Processing and Data Management in One Workflow Image processing can be added to OMERO workflows. Users can retrieve invaluable in The presentation was shared on Zenodo: https://zenodo.org/records/14044640
matrix-eu-announce
📝 New blog post Released! https://galaxyproject.org/news/2024-11-08-galaxy-imaging-fair-pipelines/ The Helmholtz Metadata Conference (HMC) 2024The Helmholtz Metadata Collaboration (HMC) focuses on enhancing research data quality through metadata, implementing this approach throughout the entire organisation. Its primary goal is to make the extensive research data produced by Helmholtz Centres findable, accessible, interoperable, and reusable (FAIR) for the scientific community. This year’s Helmholtz Metadata Conference (HMC) was held virtually in Gather Town from November 4th to 6th. The event targeted scientists, data professionals, software developers, and anyone engaged with metadata. Sessions covered a range of topics, including metadata management, ontologies, metadata schemas and formats, semantics, standardisation, and workflows. Building FAIR Bioimage Pipelines with GalaxyIn the “workflow” session, I presented the application of Galaxy to develop FAIR analysis pipelines for metadata annotation and image management in high-content screening (HCS) bioimaging. In fact, Galaxy workflows enhance data FAIRness by allowing annotation, collaboration, and public sharing. Additionally, Galaxy tools are transparent, meaning they can be easily inspected within the Galaxy Tool Shed, providing a clear view of their structure. Integrating OMERO and GalaxyDuring the conference, I discussed integrating OMERO’s upload and image annotation features with Galaxy’s image analysis workflows. This integration enables images to be automatically enriched with metadata (e.g., key-value pairs, tags, raw data, regions of interest) and uploaded to a user-defined OMERO server using a new OMERO tool suite developed in Galaxy. Currently, the suite offers tools for image and ROI uploads, metadata enrichment, and data filtering or retrieval, making it simple to transfer data and metadata to an OMERO instance. Combining Image Processing and Data Management in One WorkflowImage processing can be added to OMERO workflows. Users can retrieve images from a local server and perform image analyses, such as annotation, segmentation, or background subtraction. Galaxy is a powerful tool for image analysis, integrating popular software like CellProfiler and connecting with cloud services like OMERO and the IDR. This integration allows for efficient access to and management of image data, which is invaluable in bioimaging. Automated pipelines streamline the handling of complex metadata, ensuring data integrity and fostering interdisciplinary collaboration. This approach not only boosts the efficiency of HCS bioimaging but also aligns with the scientific community’s FAIR principles, driving scientific discovery and innovation forward. The presentation was shared on Zenodo linkedin-galaxyproject📝 New blog post Released! The Helmholtz Metadata Conference (HMC) 2024 The Helmholtz Metadata Collaboration (HMC) focuses on enhancing research Building FAIR Bioimage Pipelines with Galaxy In the “workflow” session, I presented the application of Galaxy to develop Integrating OMERO and Galaxy During the conference, I discussed integrating OMERO’s upload and image Combining Image Processing and Data Management in One Workflow Image processing can be added to OMERO workflows. Users can retrieve The presentation was shared on Zenodo: https://zenodo.org/records/14044640
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👋 Hello! I'm your friendly social media assistant. Below are the previews of this post: bluesky-galaxyproject📝 New blog post Released! The Helmholtz Metadata Conference (HMC) 2024 The Helmholtz Metadata Collaboration (HMC) focuses on enhancing research entire organisation. Its primary goal is to make the extensive research 4th to 6th. The event targeted scientists, data professionals, software developers, Building FAIR Bioimage Pipelines with Galaxy In the “workflow” session, I presented the application of Galaxy to develop allowing annotation, collaboration, and public sharing. Integrating OMERO and Galaxy During the conference, I discussed integrating OMERO’s upload and image interest) and uploaded Combining Image Processing and Data Management in One Workflow Image processing can be added to OMERO workflows. Users can retrieve analysis, integrating popular software like CellProfiler and connecting metadata, The presentation was shared (10/11) on Zenodo: https://zenodo.org/records/14044640
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@scottcain what do you think about using just the tease and then the link to the blog post? Mabe using an image as well? |
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Update since 2024-10-27
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Report from the Helmholtz Metadata Collaboration Conference (HMC) 2024