Nadia Halidi
@nadiahalidi.bsky.social
Biophysicist, #ImagingScientist, cycling enthusiast. Head of the Advanced Light Microscopy Unit (ALMU), CRG, Barcelona.
Reposted by Nadia Halidi
We spend way too much time manually analyzing #microtubules 🔬
Together with Mario, Justus, Dominik, Felix & Erik we used synthetic data and foundation models to build a fully automated segmentation pipeline.
#microscopy, #imageanalysis & #AI
Check out our preprint:
www.biorxiv.org/content/10.6...
Together with Mario, Justus, Dominik, Felix & Erik we used synthetic data and foundation models to build a fully automated segmentation pipeline.
#microscopy, #imageanalysis & #AI
Check out our preprint:
www.biorxiv.org/content/10.6...
January 14, 2026 at 4:33 PM
We spend way too much time manually analyzing #microtubules 🔬
Together with Mario, Justus, Dominik, Felix & Erik we used synthetic data and foundation models to build a fully automated segmentation pipeline.
#microscopy, #imageanalysis & #AI
Check out our preprint:
www.biorxiv.org/content/10.6...
Together with Mario, Justus, Dominik, Felix & Erik we used synthetic data and foundation models to build a fully automated segmentation pipeline.
#microscopy, #imageanalysis & #AI
Check out our preprint:
www.biorxiv.org/content/10.6...
Building blocks! 🙂
January 14, 2026 at 6:02 AM
Building blocks! 🙂
Reposted by Nadia Halidi
Are you staining DNA in your ExM samples?
We have awesome news for you! All our 6 SPY-DNA probes work beautifully well with the U-ExM protocol.
You can now tune the color of the DNA channel to your needs, according to the fluorophores on your preferred antibodies.
spirochrome.com/products/?_c...
We have awesome news for you! All our 6 SPY-DNA probes work beautifully well with the U-ExM protocol.
You can now tune the color of the DNA channel to your needs, according to the fluorophores on your preferred antibodies.
spirochrome.com/products/?_c...
January 8, 2026 at 2:25 PM
Are you staining DNA in your ExM samples?
We have awesome news for you! All our 6 SPY-DNA probes work beautifully well with the U-ExM protocol.
You can now tune the color of the DNA channel to your needs, according to the fluorophores on your preferred antibodies.
spirochrome.com/products/?_c...
We have awesome news for you! All our 6 SPY-DNA probes work beautifully well with the U-ExM protocol.
You can now tune the color of the DNA channel to your needs, according to the fluorophores on your preferred antibodies.
spirochrome.com/products/?_c...
Believe me when I say that I'm overlooking Barcelona. 🙂
December 28, 2025 at 9:30 PM
Believe me when I say that I'm overlooking Barcelona. 🙂
The compulsory Christmas day ride! ✅ 🙂🎄🌟
December 25, 2025 at 7:01 PM
The compulsory Christmas day ride! ✅ 🙂🎄🌟
Reposted by Nadia Halidi
Wuhuuu, preprints using the #RxivMaker engine are popping 🍾
Also, the PDF or our preprint was created with Rχiv-Maker
@henriqueslab.bsky.social
rxiv-maker.henriqueslab.org
Paper: arxiv.org/html/2508.00...
@henriqueslab.bsky.social
rxiv-maker.henriqueslab.org
Paper: arxiv.org/html/2508.00...
November 27, 2025 at 8:54 AM
Wuhuuu, preprints using the #RxivMaker engine are popping 🍾
Reposted by Nadia Halidi
Our annual PhD call is closing at the end of this week on 30 November. If you're interested in carrying out world-class scientific research in Barcelona, you still have a few days left to submit your application! www.crg.eu/en/content/t...
November 25, 2025 at 7:43 AM
Our annual PhD call is closing at the end of this week on 30 November. If you're interested in carrying out world-class scientific research in Barcelona, you still have a few days left to submit your application! www.crg.eu/en/content/t...
Reposted by Nadia Halidi
We just released a new major version of TrackMate (v8), the cell and organelle tracking plugin of Fiji.
It ships many new features, detailed below, but that are articulated around the following:
It ships many new features, detailed below, but that are articulated around the following:
November 20, 2025 at 11:42 AM
We just released a new major version of TrackMate (v8), the cell and organelle tracking plugin of Fiji.
It ships many new features, detailed below, but that are articulated around the following:
It ships many new features, detailed below, but that are articulated around the following:
My two favorite CUBEs 🙂
November 16, 2025 at 3:21 PM
My two favorite CUBEs 🙂
Reposted by Nadia Halidi
The FPbase spectra viewer just had it's biggest software refactor in 6 years. It *should* be largely invisible to the end user (hopefully just faster and less buggy). Please let me know if you find any issues as you use it!
www.fpbase.org/spectra/
www.fpbase.org/spectra/
FPbase Fluorescence Spectra Viewer
An interactive fluorescence spectra viewer to evaluate the spectral properties of fluorescent proteins, organic dyes, filters, and detectors.
www.fpbase.org
November 4, 2025 at 3:03 PM
The FPbase spectra viewer just had it's biggest software refactor in 6 years. It *should* be largely invisible to the end user (hopefully just faster and less buggy). Please let me know if you find any issues as you use it!
www.fpbase.org/spectra/
www.fpbase.org/spectra/
I have two open positions @ALMU @crg.eu:
1. Imaging Scientist (permanent position. Deadline 11th Nov.) recruitment.crg.eu/content/jobs...
2. Entry-Level Imaging Scientist (12 months fixed-term position. Deadline 18th Nov.) recruitment.crg.eu/content/jobs...
Reposts appreciated.
1. Imaging Scientist (permanent position. Deadline 11th Nov.) recruitment.crg.eu/content/jobs...
2. Entry-Level Imaging Scientist (12 months fixed-term position. Deadline 18th Nov.) recruitment.crg.eu/content/jobs...
Reposts appreciated.
November 3, 2025 at 2:01 PM
I have two open positions @ALMU @crg.eu:
1. Imaging Scientist (permanent position. Deadline 11th Nov.) recruitment.crg.eu/content/jobs...
2. Entry-Level Imaging Scientist (12 months fixed-term position. Deadline 18th Nov.) recruitment.crg.eu/content/jobs...
Reposts appreciated.
1. Imaging Scientist (permanent position. Deadline 11th Nov.) recruitment.crg.eu/content/jobs...
2. Entry-Level Imaging Scientist (12 months fixed-term position. Deadline 18th Nov.) recruitment.crg.eu/content/jobs...
Reposts appreciated.
Reposted by Nadia Halidi
Interested in intracellular organization and membrane trafficking? 🥞 Join us at @melisupf.bsky.social in Barcelona! We’re looking for postdocs to apply for a Juan de la Cierva fellowship (PhD between Jan’24–Dec ’25). If you’d like to work with us, get in touch! www.aei.gob.es/en/announcem...
Ayudas para contratos Juan de la Cierva 2025 | Agencia Estatal de Investigación
Las ayudas Juan de la Cierva tienen como finalidad fomentar la incorporación de jóvenes, en posesión del grado de doctor, con objeto de que completen su formación investigadora postdoctoral en centros...
www.aei.gob.es
November 2, 2025 at 11:08 AM
Interested in intracellular organization and membrane trafficking? 🥞 Join us at @melisupf.bsky.social in Barcelona! We’re looking for postdocs to apply for a Juan de la Cierva fellowship (PhD between Jan’24–Dec ’25). If you’d like to work with us, get in touch! www.aei.gob.es/en/announcem...
Diada Montserratina ✅
In memoriam duorum patrum.
In memoriam duorum patrum.
November 2, 2025 at 3:08 PM
Diada Montserratina ✅
In memoriam duorum patrum.
In memoriam duorum patrum.
I did not know that the info I was looking for is right next to the canteen, just needed to walk the other direction. In exploring mode...
October 28, 2025 at 1:17 PM
I did not know that the info I was looking for is right next to the canteen, just needed to walk the other direction. In exploring mode...
Reposted by Nadia Halidi
Episode 17 - perhaps my favorite yet. How do you write a forum.image.sc post that will get you the answers you need without revealing information you don't want to tell? @erinweisbart.bsky.social and I go through what the experts need to know to help you. Post your sci q's today on forum.image.sc !
October 27, 2025 at 6:20 PM
Episode 17 - perhaps my favorite yet. How do you write a forum.image.sc post that will get you the answers you need without revealing information you don't want to tell? @erinweisbart.bsky.social and I go through what the experts need to know to help you. Post your sci q's today on forum.image.sc !
Reposted by Nadia Halidi
Are you looking for a PhD? Join us in Barcelona! You'll dive into a community of >100 PhD students from 30 countries exploring the frontiers of biology. You can also join an online workshop on 6 November (15:00 CET) to learn how to find the right lab for you.
More info: www.crg.eu/en/content/t...
More info: www.crg.eu/en/content/t...
October 23, 2025 at 7:56 AM
Are you looking for a PhD? Join us in Barcelona! You'll dive into a community of >100 PhD students from 30 countries exploring the frontiers of biology. You can also join an online workshop on 6 November (15:00 CET) to learn how to find the right lab for you.
More info: www.crg.eu/en/content/t...
More info: www.crg.eu/en/content/t...
"The world has changed.
...
Much that once was is lost,
For none now live who remember it.”
― J.R.R. Tolkien
Cerdanyola del Vallès
...
Much that once was is lost,
For none now live who remember it.”
― J.R.R. Tolkien
Cerdanyola del Vallès
October 25, 2025 at 2:27 PM
"The world has changed.
...
Much that once was is lost,
For none now live who remember it.”
― J.R.R. Tolkien
Cerdanyola del Vallès
...
Much that once was is lost,
For none now live who remember it.”
― J.R.R. Tolkien
Cerdanyola del Vallès
Reposted by Nadia Halidi
🔬 Community Workshop #1: "Intro to Instrumentation QC in Light Microscopy"
🔹 Learn to monitor laser power
🔹 Record & inspect PSFs
🔹 Analyze data using FIJI + MetroloJ_QC
👩🔬Facilitators from @gimmfoundation.bsky.social, @crg.eu & Nova Medical School (NMS).
Let’s build better #microscopy!
#SPAOM2025
🔹 Learn to monitor laser power
🔹 Record & inspect PSFs
🔹 Analyze data using FIJI + MetroloJ_QC
👩🔬Facilitators from @gimmfoundation.bsky.social, @crg.eu & Nova Medical School (NMS).
Let’s build better #microscopy!
#SPAOM2025
October 22, 2025 at 1:48 PM
🔬 Community Workshop #1: "Intro to Instrumentation QC in Light Microscopy"
🔹 Learn to monitor laser power
🔹 Record & inspect PSFs
🔹 Analyze data using FIJI + MetroloJ_QC
👩🔬Facilitators from @gimmfoundation.bsky.social, @crg.eu & Nova Medical School (NMS).
Let’s build better #microscopy!
#SPAOM2025
🔹 Learn to monitor laser power
🔹 Record & inspect PSFs
🔹 Analyze data using FIJI + MetroloJ_QC
👩🔬Facilitators from @gimmfoundation.bsky.social, @crg.eu & Nova Medical School (NMS).
Let’s build better #microscopy!
#SPAOM2025
The inside of an SP8! Bringing it's 633 nm laser back to life from SP5 parts!
October 2, 2025 at 4:17 PM
The inside of an SP8! Bringing it's 633 nm laser back to life from SP5 parts!
Reposted by Nadia Halidi
Once is an exception, twice is a trend, thrice is a tradition!
Save the date for our now-traditional annual OME-NGFF extravaganza in Zurich!
Whether you’ve just heard about OME-NGFF and are curious to learn more or if you are working with it every day, there is something for everyone this year!
Save the date for our now-traditional annual OME-NGFF extravaganza in Zurich!
Whether you’ve just heard about OME-NGFF and are curious to learn more or if you are working with it every day, there is something for everyone this year!
We're happy to announce the 2025 International OME-NGFF workshop 🎉
📅 Dates:
- Symposium: Nov 10–11, 2025
- Hackathon: Nov 12–14, 2025
📍 Location: Zurich, Switzerland
Full details & registration: www.biovisioncenter.uzh.ch/en/events/Up...
#bioimaging #openscience #OMENGFF #OMEZarr
(1/x 🧵)
📅 Dates:
- Symposium: Nov 10–11, 2025
- Hackathon: Nov 12–14, 2025
📍 Location: Zurich, Switzerland
Full details & registration: www.biovisioncenter.uzh.ch/en/events/Up...
#bioimaging #openscience #OMENGFF #OMEZarr
(1/x 🧵)
August 25, 2025 at 1:50 PM
Once is an exception, twice is a trend, thrice is a tradition!
Save the date for our now-traditional annual OME-NGFF extravaganza in Zurich!
Whether you’ve just heard about OME-NGFF and are curious to learn more or if you are working with it every day, there is something for everyone this year!
Save the date for our now-traditional annual OME-NGFF extravaganza in Zurich!
Whether you’ve just heard about OME-NGFF and are curious to learn more or if you are working with it every day, there is something for everyone this year!
Reposted by Nadia Halidi
The #CBIAS2025 abstract deadline is this Sunday, August 31st. Submit your #BioImageAnalysis work, whether it’s a new tool or a biological discovery. #EarlyCareerResearchers, this is for you! Short and flash talk slots are up for grabs.
www.crick.ac.uk/whats-on/cri...
www.crick.ac.uk/whats-on/cri...
August 26, 2025 at 11:12 AM
The #CBIAS2025 abstract deadline is this Sunday, August 31st. Submit your #BioImageAnalysis work, whether it’s a new tool or a biological discovery. #EarlyCareerResearchers, this is for you! Short and flash talk slots are up for grabs.
www.crick.ac.uk/whats-on/cri...
www.crick.ac.uk/whats-on/cri...
🏁 - 85 km | Stage 1️⃣ - Etapa 1️⃣
🔥The peloton accelerates and swallows up most of the breakaway - Hugo de la Calle is the last man standing
⚔️ El pelotón acelera y sólo sobrevive en la fuga el debutante Hugo de la Calle (Burgos Burpellet BH)
#LaVuelta25 #VueltaLIVE
🔥The peloton accelerates and swallows up most of the breakaway - Hugo de la Calle is the last man standing
⚔️ El pelotón acelera y sólo sobrevive en la fuga el debutante Hugo de la Calle (Burgos Burpellet BH)
#LaVuelta25 #VueltaLIVE
August 23, 2025 at 2:08 PM
Reposted by Nadia Halidi
New Imaging Mass Cytometry data in the Image Data Resource (IDR, idr.openmicroscopy.org).
IDR: Image Data Resource
idr.openmicroscopy.org
August 6, 2025 at 4:28 PM
New Imaging Mass Cytometry data in the Image Data Resource (IDR, idr.openmicroscopy.org).
Reposted by Nadia Halidi
Microscopy facility post in Norwich, UK
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VACANCY
Optical Microscopy Specialist
Come work alongside the plant and microbial scientists at JIC and help us explore the biological frontier at the tissue, cell and subcellular scale!
Optical Microscopy Specialist
Come work alongside the plant and microbial scientists at JIC and help us explore the biological frontier at the tissue, cell and subcellular scale!
VACANCY - We’re seeking an Optical Microscopy Support Specialist to join our Bioimaging Platform, to help train users on light microscopes, collaborate on imaging projects and provide technical support.
www.jic.ac.uk/vacancies/op...
Closing date - 11 August 2025
Contract - Full time, indefinite
www.jic.ac.uk/vacancies/op...
Closing date - 11 August 2025
Contract - Full time, indefinite
August 4, 2025 at 8:02 PM
Microscopy facility post in Norwich, UK
🔬🔬🔬
🔬🔬🔬
July 27, 2025 at 6:15 PM