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Reposted by Constantin Pape

Andrew Payne @andrewcpayne.bsky.social · 7d

E11 Bio is excited to unveil PRISM technology for mapping brain wiring with simple light microscopes. Today, brain mapping in humans and other mammals is bottlenecked by accurate neuron tracing. PRISM uses molecular ID codes and AI to help neurons trace themselves.

Read more: e11.bio/blog/prism

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Constantin Pape @cppape.bsky.social · 22d

I did not know Taylor Swift was moonlighting in soliciting contributions for fake journals!

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Constantin Pape @cppape.bsky.social · 28d

Just checked wormhole, it only allows up to 10GB, but I have enough storage on my GDrive and will put it there. Will DM you the link later.

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Constantin Pape @cppape.bsky.social · 28d

Thanks! I will take you up on this and send it in a couple of hours.

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Constantin Pape @cppape.bsky.social · 28d

That would of course be amazing! (And I searched already and unfortunately there doesn't seem to be any reverse engineering out there). One file is ca. 20GB.

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Constantin Pape @cppape.bsky.social · 28d

If there are any arivis experts here: can you help with opening an old ".sis" file? See
forum.image.sc/t/opening-ol...

Opening old .sis file in arivis

Hi arivis and file formats experts, we are trying to open an old .sis file in arivis. However, the file can’t be opened because it was created in an older arivis version (<4.0) and we have arivis 4.2...

forum.image.sc

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Reposted by Constantin Pape

Gaspar Jekely @jekely.biologists.social.ap.brid.gy · Sep 1

We are looking for an IT engineer with a focus on operations and research data management at the Centre for Organismal Studies at @uniheidelberg in Heidelberg, Germany
#it #sysadmin #linux #researchdata
please help to spread this opening […]

[Original post on biologists.social]

Heidelberg castle by night with reflections of light in the Neckar river

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Reposted by Constantin Pape

Alexander Ecker @aecker.bsky.social · Aug 15

📢 We have an opening for a tenure track assistant professor position (W1 t.t. W2) in AI in our CS dept @uni-goettingen.de, Germany.
⏰ Application deadline: Sept 19
🗣️ Please share!
uni-goettingen.de/en/697924.html

W1-TT-W2 Artificial Intelligence - Georg-August-University Göttingen

Website of the Georg-August-University Göttingen

uni-goettingen.de

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Constantin Pape @cppape.bsky.social · Aug 15

Join us as a colleague in Göttingen!

Alexander Ecker @aecker.bsky.social · Aug 15

📢 We have an opening for a tenure track assistant professor position (W1 t.t. W2) in AI in our CS dept @uni-goettingen.de, Germany.
⏰ Application deadline: Sept 19
🗣️ Please share!
uni-goettingen.de/en/697924.html

W1-TT-W2 Artificial Intelligence - Georg-August-University Göttingen

Website of the Georg-August-University Göttingen

uni-goettingen.de

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Reposted by Constantin Pape

Teng-Leong Chew @scopeshifu.bsky.social · Feb 13

🧪Job opening at Janelia @hhmijanelia.bsky.social Integrative Imaging platform for a bioimage analyst. Please repost.

Integrative Imaging @ Janelia @i2janelia.bsky.social · Feb 12

We have an open #opportunity for a BioImage Analyst to join our team! This is an excellent role for a problem solver with an empathetic, collaborative mentality who enjoys partnering with interdisciplinary scientists. Read more and apply here: hhmi.wd1.myworkdayjobs.com/en-US/Extern...

BioImage Analyst

Primary Work Address: 19700 Helix Drive, Ashburn, VA, 20147 Current HHMI Employees, click here to apply via your Workday account. The Howard Hughes Medical Institute’s Janelia Research Campus is a pio...

hhmi.wd1.myworkdayjobs.com

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Reposted by Constantin Pape

Siân Culley @superresolusian.bsky.social · Aug 7

Hello! Very excited to share our latest preprint, which is great news for us but terrible news for any diehard fans of PSNR and SSIM as image quality metrics in microscopy... (1/5)
www.biorxiv.org/content/10.1...

Image quality metrics fail to accurately represent biological information in fluorescence microscopy

Image processing methods offer the potential to improve the quality of fluorescence microscopy data, allowing for image acquisition at lower, less phototoxic illumination doses. The training and evalu...

www.biorxiv.org

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Constantin Pape @cppape.bsky.social · Aug 7

"As foundation models are intended to be generally applicable to various tasks, data that are collected by different laboratories, using different instruments, on different samples, and even with varying data quality are crucial." 💯

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Constantin Pape @cppape.bsky.social · Aug 7

Data is the key to AI advances in biology and "Still, when it comes to data, nothing compares to the real thing." An important editorial in Nature methods with a nice little shout out to microSAM:
www.nature.com/articles/s41...

Calling all data - Nature Methods

As life sciences research becomes enmeshed in the age of AI, real experimental data are more valuable than ever.

www.nature.com

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Constantin Pape @cppape.bsky.social · Aug 7

A really nice interview with Juan. Important messages:
- "I think that universities are missing a trick in not investing more in this type of work [open source software development]"
- "Never code alone."

Australian Research Data Commons (ARDC) @ardc.edu.au · Aug 7

Congratulations Juan! We're thrilled to see Napari is a finalist this year in the ARDC-sponsored Eureka Prize for Excellence in Research Software! We're lucky to have Paula Andrea Martinez elevating the research software community. Your interview is still spot on: ardc.edu.au/article/shap...

Shaping Research Software: An Interview with Dr Juan Nunez-Iglesias | ARDC

We talk to research software engineer Dr Juan Nunez-Iglesias about his journey into the world of open source software and the amazing collaborators he met on his way.

ardc.edu.au

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Reposted by Constantin Pape

Juan Nunez-Iglesias @jni.codes · Aug 1

It's hard to express how much gratitude I have to everyone involved in the journey, both mine and @napari.org's, that has led to this point. #EurekaPrizes A small attempt below: 👇

Australian Museum Eureka Prizes @eurekaprizes.bsky.social · Jul 30

@napari.org @jni.codes is a finalist in the @ardc.edu.au Eureka Prize for Excellence in Research Software.

Learn more: youtu.be/0g_MkTa_NwQ

#EurekaPrizes

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Reposted by Constantin Pape

Jan-Martin Wiarda @jmwiarda.bsky.social · Jul 30

Hightech, Hoffnung, Haushaltslogik

Die Bundesregierung hat den Haushaltsentwurf für 2026 beschlossen. Was drin ist für Bildung und Forschung, – und warum die Prioritäten der Koalition in Wirklichkeit woanders liegen.

Im Wiarda-Blog: www.jmwiarda.de/blog/2025/07...

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Reposted by Constantin Pape

Ben Gallusser @bengallusser.bsky.social · Jul 30

Cell tracking is never perfect, and it's important to understand the types of errors your solution contains.

Here is my stab at this: Divisualisations in @napari.org. github.com/bentaculum/d...

You spin tracks out upwards from the playing video. Green edges are correct, FP in magenta, FN in cyan.

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Constantin Pape @cppape.bsky.social · Jul 23

Looking for an opportunity to work on cutting super-resolution microscopy and AI? There's still time to apply to the two positions!

Constantin Pape @cppape.bsky.social · Jul 7

Our goal is to develop methods to understand the dynamics of biomolecules, using the latest developments in super-resolution microscopy and AI-based image analysis. Apply here:
www.uni-goettingen.de/de/699491.html
www.uni-goettingen.de/de/699489.html
Feel free to reach out with further questions.

PhD Position in Artificial Intelligence (AI) for Dynamic Nanoscale Imaging (f/m/x) - Georg-August-Universität Göttingen

Webseiten der Georg-August-Universität Göttingen

www.uni-goettingen.de

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Reposted by Constantin Pape

Peter W🤓 @wang.social · Jul 20

The Big LLM Architecture Comparison, by the excellent @sebastianraschka.com

magazine.sebastianraschka.com/p/the-big-ll...

The Big LLM Architecture Comparison

From DeepSeek-V3 to Kimi K2: A Look At Modern LLM Architecture Design

magazine.sebastianraschka.com

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Reposted by Constantin Pape

NumFOCUS @numfocus.bsky.social · Jul 16

Zarr is hiring again! Build scalable bioimaging solutions, collaborate globally, and join the Friedrich Miescher Institute for Biomedical Research as a Computational Scientist or Research Software Engineer
www.fmi.ch/education-ca...

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Reposted by Constantin Pape

Viola Priesemann @violapriesemann.bsky.social · Jul 19

Physik studieren? Oder ein anderes Fach?

In Göttingen geht jetzt beides, mit dem "Bachelor Interdisziplinär", der Physik mit spannenden Disziplinen Eurer Wahl, wie z.B. Künstlicher Intelligenz, Philosophie, Neurowissenschaften, ... kombiniert.

www.uni-goettingen.de/de/studium/6...

Studiengang Physik interdisziplinär - Georg-August-Universität Göttingen

Webseiten der Georg-August-Universität Göttingen

www.uni-goettingen.de

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Reposted by Constantin Pape

mojtabart.bsky.social @mojtabart.bsky.social · Jul 17

🧠 Excited by synapse-level brain mapping? Join us at a world-class institute to build molecular tools based on our new #LICONN work — and push the frontier of #MolecularConnectomics. Let’s decode the brain, one synapse at a time.

hhmi.wd1.myworkdayjobs.com/en-US/Extern...

Research Specialist - Tavakoli Lab

Primary Work Address: 19700 Helix Drive, Ashburn, VA, 20147 Current HHMI Employees, click here to apply via your Workday account. The Howard Hughes Medical Institute’s Janelia Research Campus is a pio...

hhmi.wd1.myworkdayjobs.com

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Constantin Pape @cppape.bsky.social · Jul 16

Anwai represented the lab at MIDL very well! Read his thread for details on our two latest papers on foundation models for microscopy, histopathology and medical imaging.

Anwai Archit @anwaiarchit.bsky.social · Jul 16

We presented our latest work on "PathoSAM" and "Late PEFT" last week at #MIDL2025 (Salt Lake City)!

The community is growing and MIDL is becoming the venue-to-go for high quality research discussion!🧵

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Reposted by Constantin Pape

Beth Cimini 🔬💻📊 @bethcimini.bsky.social · Jul 10

Preprint alert! Want to hear more about the coolest new society on the block? You should check out our new preprint discussing @globias.bsky.social ! Hop into 🧵 for a couple quick highlights (1/x):

GloBIAS: strengthening the foundations of BioImage Analysis

There is a global need for BioImage Analysis (BIA) as advances in life sciences increasingly rely on cutting-edge imaging systems that have dramatically expanded the complexity and dimensionality of b...

arxiv.org

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Reposted by Constantin Pape

napari @napari.org · Jul 10

🚀The napari team is excited to announce our brand new development roadmap — a community-informed vision for the future of napari!

🔍Read the blog to learn about our process and priorities:
napari.org/island-dispa...

🗺️OR check out the roadmap itself on napari.org:
napari.org/stable/roadm...

napari roadmap blog post — napari blog documentation

napari.org

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