NFDI4BIOIMAGE
@nfdi4bioimage.bsky.social
NFDI4BIOIMAGE, a consortium of the NFDI in Germany, is a legally non-independent collaboration project. It focuses on research data management for bioimaging and image analysis. The consortium does not act autonomously towards third parties.
#NFDI4BIOIMAGEfromAtoZ - Z as in Zenodo
For us as a consortium committed to helping others make their data #FAIR, Zenodo is a useful platform where we make presentations, training materials, posters, and papers publicly available for everyone.
Find our materials here:
👉 zenodo.org/communities/...
For us as a consortium committed to helping others make their data #FAIR, Zenodo is a useful platform where we make presentations, training materials, posters, and papers publicly available for everyone.
Find our materials here:
👉 zenodo.org/communities/...
December 29, 2025 at 3:01 PM
#NFDI4BIOIMAGEfromAtoZ - Z as in Zenodo
For us as a consortium committed to helping others make their data #FAIR, Zenodo is a useful platform where we make presentations, training materials, posters, and papers publicly available for everyone.
Find our materials here:
👉 zenodo.org/communities/...
For us as a consortium committed to helping others make their data #FAIR, Zenodo is a useful platform where we make presentations, training materials, posters, and papers publicly available for everyone.
Find our materials here:
👉 zenodo.org/communities/...
#NFDI4BIOIMAGEfromAtoZ - Y as in YAML
If your research involves lots of files and metadata, YAML can help you structure everything clearly and transparently. This text-based format can be used to describe image metadata and analysis parameters in a human-readable and machine-processable way.
If your research involves lots of files and metadata, YAML can help you structure everything clearly and transparently. This text-based format can be used to describe image metadata and analysis parameters in a human-readable and machine-processable way.
December 28, 2025 at 9:38 AM
#NFDI4BIOIMAGEfromAtoZ - Y as in YAML
If your research involves lots of files and metadata, YAML can help you structure everything clearly and transparently. This text-based format can be used to describe image metadata and analysis parameters in a human-readable and machine-processable way.
If your research involves lots of files and metadata, YAML can help you structure everything clearly and transparently. This text-based format can be used to describe image metadata and analysis parameters in a human-readable and machine-processable way.
#NFDI4BIOIMAGEfromAtoZ - X as in XML.
Encouraging the use of standards like XML is important to @nfdi4bioimage.bsky.social, as it guarantees interoperability between softwares and labs.
More about the specific file format OME-XML for biological image data:
👉 docs.openmicroscopy.org/ome-model/5....
Encouraging the use of standards like XML is important to @nfdi4bioimage.bsky.social, as it guarantees interoperability between softwares and labs.
More about the specific file format OME-XML for biological image data:
👉 docs.openmicroscopy.org/ome-model/5....
December 27, 2025 at 2:01 PM
#NFDI4BIOIMAGEfromAtoZ - X as in XML.
Encouraging the use of standards like XML is important to @nfdi4bioimage.bsky.social, as it guarantees interoperability between softwares and labs.
More about the specific file format OME-XML for biological image data:
👉 docs.openmicroscopy.org/ome-model/5....
Encouraging the use of standards like XML is important to @nfdi4bioimage.bsky.social, as it guarantees interoperability between softwares and labs.
More about the specific file format OME-XML for biological image data:
👉 docs.openmicroscopy.org/ome-model/5....
#NFDI4BIOIMAGEfromAtoZ - W as in Workflow
If your research involves working with large amounts of data, it is important to plan your data workflow beforehand. A planned #workflow makes your data easy to process and reproduce, from the first image to publication.
If your research involves working with large amounts of data, it is important to plan your data workflow beforehand. A planned #workflow makes your data easy to process and reproduce, from the first image to publication.
December 26, 2025 at 1:01 PM
#NFDI4BIOIMAGEfromAtoZ - W as in Workflow
If your research involves working with large amounts of data, it is important to plan your data workflow beforehand. A planned #workflow makes your data easy to process and reproduce, from the first image to publication.
If your research involves working with large amounts of data, it is important to plan your data workflow beforehand. A planned #workflow makes your data easy to process and reproduce, from the first image to publication.
#NFDI4BIOIMAGEfromAtoZ - U as in Usability.
Usability is closely linked to the #FAIR data principles that we at @nfdi4bioimage.bsky.social strive for. To improve the usability of your data, you need to document it well, add metadata and store data in common, non-proprietary formats.
Usability is closely linked to the #FAIR data principles that we at @nfdi4bioimage.bsky.social strive for. To improve the usability of your data, you need to document it well, add metadata and store data in common, non-proprietary formats.
December 24, 2025 at 2:30 PM
#NFDI4BIOIMAGEfromAtoZ - U as in Usability.
Usability is closely linked to the #FAIR data principles that we at @nfdi4bioimage.bsky.social strive for. To improve the usability of your data, you need to document it well, add metadata and store data in common, non-proprietary formats.
Usability is closely linked to the #FAIR data principles that we at @nfdi4bioimage.bsky.social strive for. To improve the usability of your data, you need to document it well, add metadata and store data in common, non-proprietary formats.
#NFDI4BIOIMAGEfromAtoZ - T as in TIFF
When working with microscopy data, you often need image formats that preserve every detail of your measurements. #TIFF (Tagged Image File Format) is a raster image format particularly suited for high-quality, multidimensional microscopy data.
When working with microscopy data, you often need image formats that preserve every detail of your measurements. #TIFF (Tagged Image File Format) is a raster image format particularly suited for high-quality, multidimensional microscopy data.
December 23, 2025 at 12:00 PM
#NFDI4BIOIMAGEfromAtoZ - T as in TIFF
When working with microscopy data, you often need image formats that preserve every detail of your measurements. #TIFF (Tagged Image File Format) is a raster image format particularly suited for high-quality, multidimensional microscopy data.
When working with microscopy data, you often need image formats that preserve every detail of your measurements. #TIFF (Tagged Image File Format) is a raster image format particularly suited for high-quality, multidimensional microscopy data.
#NFDI4BioImageFromAtoZ - S for semantic annotation
Would you like to create #FAIR bioimage data with your research? Then, you can’t ignore semantic annotation: Data only becomes reusable, interoperable, and thus FAIR, through standardized annotation using shared vocabularies and ontologies.
Would you like to create #FAIR bioimage data with your research? Then, you can’t ignore semantic annotation: Data only becomes reusable, interoperable, and thus FAIR, through standardized annotation using shared vocabularies and ontologies.
December 22, 2025 at 10:12 AM
#NFDI4BioImageFromAtoZ - S for semantic annotation
Would you like to create #FAIR bioimage data with your research? Then, you can’t ignore semantic annotation: Data only becomes reusable, interoperable, and thus FAIR, through standardized annotation using shared vocabularies and ontologies.
Would you like to create #FAIR bioimage data with your research? Then, you can’t ignore semantic annotation: Data only becomes reusable, interoperable, and thus FAIR, through standardized annotation using shared vocabularies and ontologies.
#NFDI4BIOIMAGEfromAtoZ - R as in REMBI.
REMBI was developed by the light, electron, and X-ray microscopy communities to increase the likelihood that image data will be reused by their own reserachers, but also by other users of archived image material.
Read more:
👉 www.nature.com/articles/s41...
REMBI was developed by the light, electron, and X-ray microscopy communities to increase the likelihood that image data will be reused by their own reserachers, but also by other users of archived image material.
Read more:
👉 www.nature.com/articles/s41...
December 20, 2025 at 3:01 PM
#NFDI4BIOIMAGEfromAtoZ - R as in REMBI.
REMBI was developed by the light, electron, and X-ray microscopy communities to increase the likelihood that image data will be reused by their own reserachers, but also by other users of archived image material.
Read more:
👉 www.nature.com/articles/s41...
REMBI was developed by the light, electron, and X-ray microscopy communities to increase the likelihood that image data will be reused by their own reserachers, but also by other users of archived image material.
Read more:
👉 www.nature.com/articles/s41...
#NFDI4BIOIMAGEfromAtoZ - Q as in QUAREP-LiMi.
Quarep-LiMi is one of @NFDI4BIOIMAGE's partners with whom we exchange regularly and work together to develop internationally coordinated standards and processes for quality controll and assessment.
Have a look at the initiative:
👉 quarep.org
Quarep-LiMi is one of @NFDI4BIOIMAGE's partners with whom we exchange regularly and work together to develop internationally coordinated standards and processes for quality controll and assessment.
Have a look at the initiative:
👉 quarep.org
December 19, 2025 at 3:02 PM
#NFDI4BIOIMAGEfromAtoZ - Q as in QUAREP-LiMi.
Quarep-LiMi is one of @NFDI4BIOIMAGE's partners with whom we exchange regularly and work together to develop internationally coordinated standards and processes for quality controll and assessment.
Have a look at the initiative:
👉 quarep.org
Quarep-LiMi is one of @NFDI4BIOIMAGE's partners with whom we exchange regularly and work together to develop internationally coordinated standards and processes for quality controll and assessment.
Have a look at the initiative:
👉 quarep.org
#NFDI4BIOIMAGEfromAtoZ - P as in Pixels.
In biological microscopy, #pixels are more than just image dots – they are quantitative measurements that encode spatial and intensity information at the core of high-dimensional bioimaging data.
In biological microscopy, #pixels are more than just image dots – they are quantitative measurements that encode spatial and intensity information at the core of high-dimensional bioimaging data.
December 18, 2025 at 12:02 PM
#NFDI4BIOIMAGEfromAtoZ - P as in Pixels.
In biological microscopy, #pixels are more than just image dots – they are quantitative measurements that encode spatial and intensity information at the core of high-dimensional bioimaging data.
In biological microscopy, #pixels are more than just image dots – they are quantitative measurements that encode spatial and intensity information at the core of high-dimensional bioimaging data.
#NFDBIOIMAGEfromAtoZ - O for OMERO.
What do @nfdi4bioimage.bsky.social and the @openmicroscopy.org have in common? Both aim to improve the management, documentation, and sharing of bioimage data.
👉 Find out more about #OMERO: www.openmicroscopy.org/omero/
What do @nfdi4bioimage.bsky.social and the @openmicroscopy.org have in common? Both aim to improve the management, documentation, and sharing of bioimage data.
👉 Find out more about #OMERO: www.openmicroscopy.org/omero/
December 17, 2025 at 1:12 PM
#NFDBIOIMAGEfromAtoZ - O for OMERO.
What do @nfdi4bioimage.bsky.social and the @openmicroscopy.org have in common? Both aim to improve the management, documentation, and sharing of bioimage data.
👉 Find out more about #OMERO: www.openmicroscopy.org/omero/
What do @nfdi4bioimage.bsky.social and the @openmicroscopy.org have in common? Both aim to improve the management, documentation, and sharing of bioimage data.
👉 Find out more about #OMERO: www.openmicroscopy.org/omero/
#NFD4BIOIMAGEfromAtoZ - N as in NFDI
Since 2020, @nfdi.de has been working with 26 consortia and Base4NFDI toward its vision of “data as a common good for excellent research, organized by the scientific community in Germany.” In 2023 @nfdi4bioimage.bsky.social joined the NFDI. 👉 www.nfdi.de?lang=en
Since 2020, @nfdi.de has been working with 26 consortia and Base4NFDI toward its vision of “data as a common good for excellent research, organized by the scientific community in Germany.” In 2023 @nfdi4bioimage.bsky.social joined the NFDI. 👉 www.nfdi.de?lang=en
December 16, 2025 at 10:21 AM
#NFD4BIOIMAGEfromAtoZ - N as in NFDI
Since 2020, @nfdi.de has been working with 26 consortia and Base4NFDI toward its vision of “data as a common good for excellent research, organized by the scientific community in Germany.” In 2023 @nfdi4bioimage.bsky.social joined the NFDI. 👉 www.nfdi.de?lang=en
Since 2020, @nfdi.de has been working with 26 consortia and Base4NFDI toward its vision of “data as a common good for excellent research, organized by the scientific community in Germany.” In 2023 @nfdi4bioimage.bsky.social joined the NFDI. 👉 www.nfdi.de?lang=en
#NFDI4BIOIMAGEfromAtoZ - M as in Metadata Standards.
Standards developed by the bioimaging community emphasize that metadata should contain information relevant to microscopists, computer vision researchers, and imaging scientists - e.g. the imaging method.
👉 gerbi-gmb.de/2024/12/05/m...
Standards developed by the bioimaging community emphasize that metadata should contain information relevant to microscopists, computer vision researchers, and imaging scientists - e.g. the imaging method.
👉 gerbi-gmb.de/2024/12/05/m...
December 16, 2025 at 8:29 AM
#NFDI4BIOIMAGEfromAtoZ - M as in Metadata Standards.
Standards developed by the bioimaging community emphasize that metadata should contain information relevant to microscopists, computer vision researchers, and imaging scientists - e.g. the imaging method.
👉 gerbi-gmb.de/2024/12/05/m...
Standards developed by the bioimaging community emphasize that metadata should contain information relevant to microscopists, computer vision researchers, and imaging scientists - e.g. the imaging method.
👉 gerbi-gmb.de/2024/12/05/m...
#NFDI4BIOIMAGEfromAtoZ - L as in License.
An important aspect of making your research data #FAIR is to make it #reusable.
We at @NFDI4BIOIMAGE encourage you to make your data publicly available under an appropriate license to increase its potential for reuse.
An important aspect of making your research data #FAIR is to make it #reusable.
We at @NFDI4BIOIMAGE encourage you to make your data publicly available under an appropriate license to increase its potential for reuse.
December 13, 2025 at 2:30 PM
#NFDI4BIOIMAGEfromAtoZ - L as in License.
An important aspect of making your research data #FAIR is to make it #reusable.
We at @NFDI4BIOIMAGE encourage you to make your data publicly available under an appropriate license to increase its potential for reuse.
An important aspect of making your research data #FAIR is to make it #reusable.
We at @NFDI4BIOIMAGE encourage you to make your data publicly available under an appropriate license to increase its potential for reuse.
#NFD4BIOIMAGEfromAtoZ - K for Knowledge Graph
@nfdi4bioimage.bsky.social
has its own #knowledgegraph (#N4BIKG) since July. It contains information about the consortium, services, and research artifacts deposited in #Zenodo.
👉 More information: mpievolbio-scicomp.pages.gwdg.de/blog/post/20...
@nfdi4bioimage.bsky.social
has its own #knowledgegraph (#N4BIKG) since July. It contains information about the consortium, services, and research artifacts deposited in #Zenodo.
👉 More information: mpievolbio-scicomp.pages.gwdg.de/blog/post/20...
December 12, 2025 at 3:39 PM
#NFD4BIOIMAGEfromAtoZ - K for Knowledge Graph
@nfdi4bioimage.bsky.social
has its own #knowledgegraph (#N4BIKG) since July. It contains information about the consortium, services, and research artifacts deposited in #Zenodo.
👉 More information: mpievolbio-scicomp.pages.gwdg.de/blog/post/20...
@nfdi4bioimage.bsky.social
has its own #knowledgegraph (#N4BIKG) since July. It contains information about the consortium, services, and research artifacts deposited in #Zenodo.
👉 More information: mpievolbio-scicomp.pages.gwdg.de/blog/post/20...
#NFD4BIOIMAGEfromAtoZ - J for Jupyter.
Jupyter Notebooks are interactive documents that allow you to document and execute code, data, images, and entire workflows together. They are used both @nfdi4bioimage.bsky.social and @nfdi.de:
👉 nfdi4bioimage.github.io/training/rea...
👉 nfdi-jupyter.de
Jupyter Notebooks are interactive documents that allow you to document and execute code, data, images, and entire workflows together. They are used both @nfdi4bioimage.bsky.social and @nfdi.de:
👉 nfdi4bioimage.github.io/training/rea...
👉 nfdi-jupyter.de
December 11, 2025 at 12:54 PM
#NFD4BIOIMAGEfromAtoZ - J for Jupyter.
Jupyter Notebooks are interactive documents that allow you to document and execute code, data, images, and entire workflows together. They are used both @nfdi4bioimage.bsky.social and @nfdi.de:
👉 nfdi4bioimage.github.io/training/rea...
👉 nfdi-jupyter.de
Jupyter Notebooks are interactive documents that allow you to document and execute code, data, images, and entire workflows together. They are used both @nfdi4bioimage.bsky.social and @nfdi.de:
👉 nfdi4bioimage.github.io/training/rea...
👉 nfdi-jupyter.de
#NFDI4BIOIMAGEfromAtoZ - I for Interoperability
Interoperability is the most important prerequisite for standardizing biological image data. Therefore, @nfdi4bioimage.bsky.social creates standards, interoperable formats, and a common foundation for the description and exchange of bioimage data.
Interoperability is the most important prerequisite for standardizing biological image data. Therefore, @nfdi4bioimage.bsky.social creates standards, interoperable formats, and a common foundation for the description and exchange of bioimage data.
December 10, 2025 at 2:30 PM
#NFDI4BIOIMAGEfromAtoZ - I for Interoperability
Interoperability is the most important prerequisite for standardizing biological image data. Therefore, @nfdi4bioimage.bsky.social creates standards, interoperable formats, and a common foundation for the description and exchange of bioimage data.
Interoperability is the most important prerequisite for standardizing biological image data. Therefore, @nfdi4bioimage.bsky.social creates standards, interoperable formats, and a common foundation for the description and exchange of bioimage data.
#NFDI4BIOIMAGEfromAtoZ - H as in Help Desk.
If you have questions about metadata annotations, suitable repositories, and other topics related to image analysis and software integration, then the Help Desk is your starting point.
You can contact the Help Desk here:
👉 nfdi4bioimage.de/help-desk/
If you have questions about metadata annotations, suitable repositories, and other topics related to image analysis and software integration, then the Help Desk is your starting point.
You can contact the Help Desk here:
👉 nfdi4bioimage.de/help-desk/
December 9, 2025 at 4:30 PM
#NFDI4BIOIMAGEfromAtoZ - H as in Help Desk.
If you have questions about metadata annotations, suitable repositories, and other topics related to image analysis and software integration, then the Help Desk is your starting point.
You can contact the Help Desk here:
👉 nfdi4bioimage.de/help-desk/
If you have questions about metadata annotations, suitable repositories, and other topics related to image analysis and software integration, then the Help Desk is your starting point.
You can contact the Help Desk here:
👉 nfdi4bioimage.de/help-desk/
#NFDI4BIOIMAGEfromAtoZ - G as in Galaxy.
The platform Galaxy is designed for data-intensive scientific analysis and provides access to virtual workstations for analysing, visualising and training bioimage data, in order to create and manage reproducible image analysis workflows.
👉 galaxyproject.org
The platform Galaxy is designed for data-intensive scientific analysis and provides access to virtual workstations for analysing, visualising and training bioimage data, in order to create and manage reproducible image analysis workflows.
👉 galaxyproject.org
December 8, 2025 at 5:00 PM
#NFDI4BIOIMAGEfromAtoZ - G as in Galaxy.
The platform Galaxy is designed for data-intensive scientific analysis and provides access to virtual workstations for analysing, visualising and training bioimage data, in order to create and manage reproducible image analysis workflows.
👉 galaxyproject.org
The platform Galaxy is designed for data-intensive scientific analysis and provides access to virtual workstations for analysing, visualising and training bioimage data, in order to create and manage reproducible image analysis workflows.
👉 galaxyproject.org
Reposted by NFDI4BIOIMAGE
The NFDI BioMed IG met Dec 2–4 at ZB MED Cologne to advance collaboration toward #onenfdi. Teams from @ghga.bsky.social, @nfdi4bioimage.bsky.social, NFDI4Health, NFDI4Immuno & NFDI4Microbiota aligned on shared services, joint outreach, and metadata needs strengthening the path to a unified #NFDI.
December 8, 2025 at 9:49 AM
The NFDI BioMed IG met Dec 2–4 at ZB MED Cologne to advance collaboration toward #onenfdi. Teams from @ghga.bsky.social, @nfdi4bioimage.bsky.social, NFDI4Health, NFDI4Immuno & NFDI4Microbiota aligned on shared services, joint outreach, and metadata needs strengthening the path to a unified #NFDI.
#NFDI4BIOIMAGEfromAtoZ: F as in FAIR.
Creating data in accordance with the #FAIR principles can be achieved by documenting it, including the associated metadata in a suitable repository, using consistent identifiers and standardized vocabulary.
Read more:
👉 www.go-fair.org/fair-princip...
Creating data in accordance with the #FAIR principles can be achieved by documenting it, including the associated metadata in a suitable repository, using consistent identifiers and standardized vocabulary.
Read more:
👉 www.go-fair.org/fair-princip...
December 6, 2025 at 2:30 PM
#NFDI4BIOIMAGEfromAtoZ: F as in FAIR.
Creating data in accordance with the #FAIR principles can be achieved by documenting it, including the associated metadata in a suitable repository, using consistent identifiers and standardized vocabulary.
Read more:
👉 www.go-fair.org/fair-princip...
Creating data in accordance with the #FAIR principles can be achieved by documenting it, including the associated metadata in a suitable repository, using consistent identifiers and standardized vocabulary.
Read more:
👉 www.go-fair.org/fair-princip...
#NFDI4BIOIMAGEfromAtoZ: Experimental Metadata.
Much of the technical metadata in microscopy is captured automatically, but the story behind the image – how the experiment was designed, performed, and controlled – needs to be added by the researchers themselves.
Our Helpdesk is here to support you!
Much of the technical metadata in microscopy is captured automatically, but the story behind the image – how the experiment was designed, performed, and controlled – needs to be added by the researchers themselves.
Our Helpdesk is here to support you!
December 5, 2025 at 3:15 PM
#NFDI4BIOIMAGEfromAtoZ: Experimental Metadata.
Much of the technical metadata in microscopy is captured automatically, but the story behind the image – how the experiment was designed, performed, and controlled – needs to be added by the researchers themselves.
Our Helpdesk is here to support you!
Much of the technical metadata in microscopy is captured automatically, but the story behind the image – how the experiment was designed, performed, and controlled – needs to be added by the researchers themselves.
Our Helpdesk is here to support you!
Today's #NFD4BIOIMAGEfromAtoZ letter is D as in Data Stewardship which should be a collective endeavour in the research process. If you face challenges with managing your data, the @nfdi4bioimage.bsky.social data stewards are happy to support you.
Contact them here: 👉 nfdi4bioimage.de/help-desk/
Contact them here: 👉 nfdi4bioimage.de/help-desk/
December 4, 2025 at 2:34 PM
Today's #NFD4BIOIMAGEfromAtoZ letter is D as in Data Stewardship which should be a collective endeavour in the research process. If you face challenges with managing your data, the @nfdi4bioimage.bsky.social data stewards are happy to support you.
Contact them here: 👉 nfdi4bioimage.de/help-desk/
Contact them here: 👉 nfdi4bioimage.de/help-desk/
The third letter in our #NFDI4BIOIMAGEfromAtoZ calendar is C for Community Standards. Common standards for high-dimensional image data, like the FAIR-IO concept, are being developed by NFDI4BIOIMAGE together with the bioimaging community.
👉 Find out more nfdi4bioimage.de/about-us/goa...
👉 Find out more nfdi4bioimage.de/about-us/goa...
December 3, 2025 at 5:06 PM
The third letter in our #NFDI4BIOIMAGEfromAtoZ calendar is C for Community Standards. Common standards for high-dimensional image data, like the FAIR-IO concept, are being developed by NFDI4BIOIMAGE together with the bioimaging community.
👉 Find out more nfdi4bioimage.de/about-us/goa...
👉 Find out more nfdi4bioimage.de/about-us/goa...
The 2nd term of our #NFDI4BIOIMAGEfromAtoZ calendar is @bioimagearchive.bsky.social, an international data repository for biological image data provided by @ebi.embl.org. It accepts data linked to a publication and promotes measures to increase the reusability of data 👉 www.ebi.ac.uk/bioimage-arc...
December 2, 2025 at 2:24 PM
The 2nd term of our #NFDI4BIOIMAGEfromAtoZ calendar is @bioimagearchive.bsky.social, an international data repository for biological image data provided by @ebi.embl.org. It accepts data linked to a publication and promotes measures to increase the reusability of data 👉 www.ebi.ac.uk/bioimage-arc...