Diane Adjavon
@adjavon.bsky.social
Machine Learning Researcher 🖥🔬🧫 🦆 @ Funke Lab, #HHMIJanelia
Views my own.
Views my own.
Pinned
Diane Adjavon
@adjavon.bsky.social
· Jan 15
Can you spot the difference between the cells on the left and right?
Read on for the solution (and a preprint announcement)… 👇
1/6
Read on for the solution (and a preprint announcement)… 👇
1/6
Reposted by Diane Adjavon
🖱️ Picking out individual cells in distorted microscopy images is now as easy as clicking a button, thanks to Cellpose3: www.janelia.org/news/newest-...
Newest version of Cellpose can spot cell boundaries even in cloudy conditions
Picking out individual cells in distorted microscopy images is now as easy as clicking a button. A new version of Cellpose – the popular tool that maps the boundaries of diverse cells in microscopy
www.janelia.org
May 9, 2025 at 1:22 PM
🖱️ Picking out individual cells in distorted microscopy images is now as easy as clicking a button, thanks to Cellpose3: www.janelia.org/news/newest-...
Reposted by Diane Adjavon
Super excited to share our new method: Context-dependent Identification of Spatial Motifs (CISM)! 🚀 A two-step approach for uncovering fine-scale intercellular modules associated with human disease states from single-cell spatial data.
doi.org/10.1101/2025...
🧵
1/n
doi.org/10.1101/2025...
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1/n
May 9, 2025 at 9:08 AM
Super excited to share our new method: Context-dependent Identification of Spatial Motifs (CISM)! 🚀 A two-step approach for uncovering fine-scale intercellular modules associated with human disease states from single-cell spatial data.
doi.org/10.1101/2025...
🧵
1/n
doi.org/10.1101/2025...
🧵
1/n
Reposted by Diane Adjavon
We are proudly hosting
𝐃𝐫. 𝐓𝐚𝐥𝐥𝐞𝐲 𝐋𝐚𝐦𝐛𝐞𝐫𝐭 @talley.codes (CITE, Harvard Medical School):
𝐒𝐢𝐦𝐮𝐥𝐚𝐭𝐢𝐧𝐠 𝐫𝐞𝐚𝐥𝐢𝐬𝐭𝐢𝐜 𝐥𝐢𝐠𝐡𝐭 𝐦𝐢𝐜𝐫𝐨𝐬𝐜𝐨𝐩𝐲 𝐢𝐦𝐚𝐠𝐞𝐬 𝐮𝐬𝐢𝐧𝐠 𝐦𝐢𝐜𝐫𝐨𝐬𝐢𝐦
When: 𝐌𝐚𝐲 𝟐𝟗𝐭𝐡 @ 𝟏𝟏 𝐚𝐦 𝐄𝐃𝐓 (Boston time)
Join us on Zoom! harvard.zoom.us/j/9762343464...
𝐃𝐫. 𝐓𝐚𝐥𝐥𝐞𝐲 𝐋𝐚𝐦𝐛𝐞𝐫𝐭 @talley.codes (CITE, Harvard Medical School):
𝐒𝐢𝐦𝐮𝐥𝐚𝐭𝐢𝐧𝐠 𝐫𝐞𝐚𝐥𝐢𝐬𝐭𝐢𝐜 𝐥𝐢𝐠𝐡𝐭 𝐦𝐢𝐜𝐫𝐨𝐬𝐜𝐨𝐩𝐲 𝐢𝐦𝐚𝐠𝐞𝐬 𝐮𝐬𝐢𝐧𝐠 𝐦𝐢𝐜𝐫𝐨𝐬𝐢𝐦
When: 𝐌𝐚𝐲 𝟐𝟗𝐭𝐡 @ 𝟏𝟏 𝐚𝐦 𝐄𝐃𝐓 (Boston time)
Join us on Zoom! harvard.zoom.us/j/9762343464...
May 7, 2025 at 3:59 PM
We are proudly hosting
𝐃𝐫. 𝐓𝐚𝐥𝐥𝐞𝐲 𝐋𝐚𝐦𝐛𝐞𝐫𝐭 @talley.codes (CITE, Harvard Medical School):
𝐒𝐢𝐦𝐮𝐥𝐚𝐭𝐢𝐧𝐠 𝐫𝐞𝐚𝐥𝐢𝐬𝐭𝐢𝐜 𝐥𝐢𝐠𝐡𝐭 𝐦𝐢𝐜𝐫𝐨𝐬𝐜𝐨𝐩𝐲 𝐢𝐦𝐚𝐠𝐞𝐬 𝐮𝐬𝐢𝐧𝐠 𝐦𝐢𝐜𝐫𝐨𝐬𝐢𝐦
When: 𝐌𝐚𝐲 𝟐𝟗𝐭𝐡 @ 𝟏𝟏 𝐚𝐦 𝐄𝐃𝐓 (Boston time)
Join us on Zoom! harvard.zoom.us/j/9762343464...
𝐃𝐫. 𝐓𝐚𝐥𝐥𝐞𝐲 𝐋𝐚𝐦𝐛𝐞𝐫𝐭 @talley.codes (CITE, Harvard Medical School):
𝐒𝐢𝐦𝐮𝐥𝐚𝐭𝐢𝐧𝐠 𝐫𝐞𝐚𝐥𝐢𝐬𝐭𝐢𝐜 𝐥𝐢𝐠𝐡𝐭 𝐦𝐢𝐜𝐫𝐨𝐬𝐜𝐨𝐩𝐲 𝐢𝐦𝐚𝐠𝐞𝐬 𝐮𝐬𝐢𝐧𝐠 𝐦𝐢𝐜𝐫𝐨𝐬𝐢𝐦
When: 𝐌𝐚𝐲 𝟐𝟗𝐭𝐡 @ 𝟏𝟏 𝐚𝐦 𝐄𝐃𝐓 (Boston time)
Join us on Zoom! harvard.zoom.us/j/9762343464...
Reposted by Diane Adjavon
🚀🔬🦠 Releasing 🤖Cellpose-SAM🤖, a cellular segmentation algorithm with superhuman generalization 🦸♀️. Try it now on 🤗 huggingface.co/spaces/mouse...
paper: www.biorxiv.org/content/10.1...
w/ @computingnature.bsky.social 1/n
paper: www.biorxiv.org/content/10.1...
w/ @computingnature.bsky.social 1/n
May 3, 2025 at 7:12 PM
🚀🔬🦠 Releasing 🤖Cellpose-SAM🤖, a cellular segmentation algorithm with superhuman generalization 🦸♀️. Try it now on 🤗 huggingface.co/spaces/mouse...
paper: www.biorxiv.org/content/10.1...
w/ @computingnature.bsky.social 1/n
paper: www.biorxiv.org/content/10.1...
w/ @computingnature.bsky.social 1/n
Reposted by Diane Adjavon
🥳 Happy #DNADay!
🧬 What better way to celebrate than with cycleHCR: one of our newest tools, developed by the Liu Lab, that uses a novel DNA barcode system to track hundreds of RNA & protein molecules in single cells within thick biological samples ➡️ www.janelia.org/news/new-met...
🧬 What better way to celebrate than with cycleHCR: one of our newest tools, developed by the Liu Lab, that uses a novel DNA barcode system to track hundreds of RNA & protein molecules in single cells within thick biological samples ➡️ www.janelia.org/news/new-met...
April 25, 2025 at 1:55 PM
🥳 Happy #DNADay!
🧬 What better way to celebrate than with cycleHCR: one of our newest tools, developed by the Liu Lab, that uses a novel DNA barcode system to track hundreds of RNA & protein molecules in single cells within thick biological samples ➡️ www.janelia.org/news/new-met...
🧬 What better way to celebrate than with cycleHCR: one of our newest tools, developed by the Liu Lab, that uses a novel DNA barcode system to track hundreds of RNA & protein molecules in single cells within thick biological samples ➡️ www.janelia.org/news/new-met...
Reposted by Diane Adjavon
Very happy to see our work finally in print!
www.pnas.org/doi/10.1073/...
TLDR: Tilt illusion is not a bug, but a feature of a well-designed visual system that maximizes information capacity adaptively based on spatial context. (1/6)
www.pnas.org/doi/10.1073/...
TLDR: Tilt illusion is not a bug, but a feature of a well-designed visual system that maximizes information capacity adaptively based on spatial context. (1/6)
The tilt illusion arises from an efficient reallocation of neural coding resources at the contextual boundary | PNAS
The tilt illusion—a bias in the perceived orientation of a center stimulus induced
by an oriented surround—illustrates how context shapes visual pe...
www.pnas.org
April 24, 2025 at 2:15 AM
Very happy to see our work finally in print!
www.pnas.org/doi/10.1073/...
TLDR: Tilt illusion is not a bug, but a feature of a well-designed visual system that maximizes information capacity adaptively based on spatial context. (1/6)
www.pnas.org/doi/10.1073/...
TLDR: Tilt illusion is not a bug, but a feature of a well-designed visual system that maximizes information capacity adaptively based on spatial context. (1/6)
Reposted by Diane Adjavon
How can AI help you to analyze your microscopy images?
Find out at the "Machine Learning for Microscopy Image Analysis" course at the @mblscience.bsky.social in Woods Hole from Aug 22-Sep 6!
Applications are due 🚨 April 30 🚨
Read on for more! 👇
www.mbl.edu/education/ad...
Find out at the "Machine Learning for Microscopy Image Analysis" course at the @mblscience.bsky.social in Woods Hole from Aug 22-Sep 6!
Applications are due 🚨 April 30 🚨
Read on for more! 👇
www.mbl.edu/education/ad...
AI@MBL: Machine Learning for Microscopy Image Analysis | Marine Biological Laboratory
The goal of this course is to familiarize researchers in the life sciences with state-of-the-art deep learning techniques for microscopy image analysis and to introduce them to tools and frameworks th...
www.mbl.edu
April 18, 2025 at 6:48 PM
How can AI help you to analyze your microscopy images?
Find out at the "Machine Learning for Microscopy Image Analysis" course at the @mblscience.bsky.social in Woods Hole from Aug 22-Sep 6!
Applications are due 🚨 April 30 🚨
Read on for more! 👇
www.mbl.edu/education/ad...
Find out at the "Machine Learning for Microscopy Image Analysis" course at the @mblscience.bsky.social in Woods Hole from Aug 22-Sep 6!
Applications are due 🚨 April 30 🚨
Read on for more! 👇
www.mbl.edu/education/ad...
Reposted by Diane Adjavon
Igor Siwanowicz of @hhmijanelia.bsky.social captured these photos of pollen grains on the sigma of a morning glory flower. This is part of the early stage in creating a seed, it might also be the reason why you can’t stop sneezing!
March 25, 2025 at 5:36 PM
Igor Siwanowicz of @hhmijanelia.bsky.social captured these photos of pollen grains on the sigma of a morning glory flower. This is part of the early stage in creating a seed, it might also be the reason why you can’t stop sneezing!
I was wrong before, *this* was actually tailor-made for me.
Our next curious guest is Jacob Collier! The episode comes out on March 26th at youtube.com/complexly!
If you know Jacob, you already know you're in for an exploration of creative and philosophical ideas with infectious enthusiasm.
If you know Jacob, you already know you're in for an exploration of creative and philosophical ideas with infectious enthusiasm.
March 31, 2025 at 6:09 PM
I was wrong before, *this* was actually tailor-made for me.
Reposted by Diane Adjavon
Yes, the paper is cool...
BUT if you’re a fan of fly vision and neuroanatomy, the Supplemental Materials are the real treat 🎉
We made a catalog of all the cells and it's ✨beautiful✨
🧭 Interactive explorer: reiserlab.github.io/male-drosoph...
BUT if you’re a fan of fly vision and neuroanatomy, the Supplemental Materials are the real treat 🎉
We made a catalog of all the cells and it's ✨beautiful✨
🧭 Interactive explorer: reiserlab.github.io/male-drosoph...
Start Page .:. Cell Type Explorer .:. Connectome-driven neural inventory of a complete visual system
reiserlab.github.io
March 27, 2025 at 10:58 PM
Yes, the paper is cool...
BUT if you’re a fan of fly vision and neuroanatomy, the Supplemental Materials are the real treat 🎉
We made a catalog of all the cells and it's ✨beautiful✨
🧭 Interactive explorer: reiserlab.github.io/male-drosoph...
BUT if you’re a fan of fly vision and neuroanatomy, the Supplemental Materials are the real treat 🎉
We made a catalog of all the cells and it's ✨beautiful✨
🧭 Interactive explorer: reiserlab.github.io/male-drosoph...
Reposted by Diane Adjavon
I know there's a 𝒍𝒐𝒕 going on right now, but I couldn’t be prouder to share this long-incubated labor of love: the complete connectome of the male 𝐷𝑟𝑜𝑠𝑜𝑝ℎ𝑖𝑙𝑎 optic lobe 🧠🪰
🔗 www.nature.com/articles/s41...
🔗 www.nature.com/articles/s41...
Connectome-driven neural inventory of a complete visual system - Nature
A connectome of the right optic lobe from a male fruitfly is presented together with an extensive collection of genetic drivers matched to a comprehensive neuron-type catalogue.
www.nature.com
March 27, 2025 at 10:58 PM
I know there's a 𝒍𝒐𝒕 going on right now, but I couldn’t be prouder to share this long-incubated labor of love: the complete connectome of the male 𝐷𝑟𝑜𝑠𝑜𝑝ℎ𝑖𝑙𝑎 optic lobe 🧠🪰
🔗 www.nature.com/articles/s41...
🔗 www.nature.com/articles/s41...
Reposted by Diane Adjavon
in the crowd ... an ant cricket (possibly a desert ant cricket, Myrmecophilus manni) cruises amongst 100s of ants beneath a flipped stone
oak woodland near Warner Springs CA
oak woodland near Warner Springs CA
March 22, 2025 at 3:28 AM
in the crowd ... an ant cricket (possibly a desert ant cricket, Myrmecophilus manni) cruises amongst 100s of ants beneath a flipped stone
oak woodland near Warner Springs CA
oak woodland near Warner Springs CA
the thomas sanders x dropout combo feels tailor made for me
There's a new episode of Um, Actually out now on @dropout.tv - with guests Alexis Nikole Nelson, Thomas Sanders, and Brian Furey Morabito! 🎉
March 25, 2025 at 11:44 PM
the thomas sanders x dropout combo feels tailor made for me
Reposted by Diane Adjavon
Join Janelia Senior Group Leader & Head of Computation & Theory Stephan Saalfeld @herrsaalfeld.bsky.social this Thursday at #ScienceOnTap at Old Ox Brewery, hosted by @loudounlibrary.bsky.social
🤖 Learn how #AI aids in understanding the complexity of biological systems & their interactions.
🤖 Learn how #AI aids in understanding the complexity of biological systems & their interactions.
March 3, 2025 at 5:33 PM
Join Janelia Senior Group Leader & Head of Computation & Theory Stephan Saalfeld @herrsaalfeld.bsky.social this Thursday at #ScienceOnTap at Old Ox Brewery, hosted by @loudounlibrary.bsky.social
🤖 Learn how #AI aids in understanding the complexity of biological systems & their interactions.
🤖 Learn how #AI aids in understanding the complexity of biological systems & their interactions.
Reposted by Diane Adjavon
It can feel like we have made no progress in the fight against climate change.
That's not the case.
youtu.be/h1jOqyjcO4g?...
That's not the case.
youtu.be/h1jOqyjcO4g?...
How much progress have we made on climate change?
YouTube video by Simon Clark
youtu.be
March 1, 2025 at 8:17 AM
It can feel like we have made no progress in the fight against climate change.
That's not the case.
youtu.be/h1jOqyjcO4g?...
That's not the case.
youtu.be/h1jOqyjcO4g?...
Reposted by Diane Adjavon
We read "Large Concept Models" in our reading group. It models language at the sentence resolution - "concepts". We had lots of thoughts about it! You can read them in our new Janelia CVML blog post:
janelia-cvml.github.io/blog/posts/L...
#ML #AI #Janelia @adjavon.bsky.social @bogovicj.bsky.social
janelia-cvml.github.io/blog/posts/L...
#ML #AI #Janelia @adjavon.bsky.social @bogovicj.bsky.social
Large Concept Models: Language Modeling in a Sentence Representation Space – Janelia CVML
Summary of and thoughts on Meta’s recent paper
janelia-cvml.github.io
February 14, 2025 at 6:35 PM
We read "Large Concept Models" in our reading group. It models language at the sentence resolution - "concepts". We had lots of thoughts about it! You can read them in our new Janelia CVML blog post:
janelia-cvml.github.io/blog/posts/L...
#ML #AI #Janelia @adjavon.bsky.social @bogovicj.bsky.social
janelia-cvml.github.io/blog/posts/L...
#ML #AI #Janelia @adjavon.bsky.social @bogovicj.bsky.social
Reposted by Diane Adjavon
The preprint is now available! Check it out... and... if you want to repost, why not 👇the post down here👇, so others get the bioRxiv link right away? Oh, and... 𝐭𝐡𝐚𝐧𝐤𝐬! 🙏
doi.org/10.1101/2025...
bsky.app/profile/flor...
doi.org/10.1101/2025...
bsky.app/profile/flor...
🔬🎤 As pre-announced a few days ago... please let us proudly present to you: 𝑴𝒊𝒄𝒓𝒐𝕊𝒑𝒍𝒊𝒕 - your ticket to imaging more, imaging more gentle, and/or imaging more efficient. 🔬
doi.org/10.1101/2025...
Like ❤️, repost 🔂, and most importantly... please send feedback ✉️ our way! 🙏
doi.org/10.1101/2025...
Like ❤️, repost 🔂, and most importantly... please send feedback ✉️ our way! 🙏
February 11, 2025 at 6:13 PM
The preprint is now available! Check it out... and... if you want to repost, why not 👇the post down here👇, so others get the bioRxiv link right away? Oh, and... 𝐭𝐡𝐚𝐧𝐤𝐬! 🙏
doi.org/10.1101/2025...
bsky.app/profile/flor...
doi.org/10.1101/2025...
bsky.app/profile/flor...
Reposted by Diane Adjavon
Immagine you could image two cellular structures in the same fluorescent channel and still reliably get them separated afterwards…
What would you do with this?
Now… what would you do if that also worked with 4 structures at once? 👇 #MicroSplit #preview🧵
What would you do with this?
Now… what would you do if that also worked with 4 structures at once? 👇 #MicroSplit #preview🧵
February 8, 2025 at 7:49 AM
Immagine you could image two cellular structures in the same fluorescent channel and still reliably get them separated afterwards…
What would you do with this?
Now… what would you do if that also worked with 4 structures at once? 👇 #MicroSplit #preview🧵
What would you do with this?
Now… what would you do if that also worked with 4 structures at once? 👇 #MicroSplit #preview🧵
Reposted by Diane Adjavon
📢 Submissions are now open for the CellMap Segmentation Challenge.
Build the best method for segmenting cellular organelles in vEM using our 289 annotated volumes, 40 organelle classes, and 22 diverse cell and tissue types.
🔗 hhmi.news/410evJQ
Build the best method for segmenting cellular organelles in vEM using our 289 annotated volumes, 40 organelle classes, and 22 diverse cell and tissue types.
🔗 hhmi.news/410evJQ
February 5, 2025 at 4:09 PM
📢 Submissions are now open for the CellMap Segmentation Challenge.
Build the best method for segmenting cellular organelles in vEM using our 289 annotated volumes, 40 organelle classes, and 22 diverse cell and tissue types.
🔗 hhmi.news/410evJQ
Build the best method for segmenting cellular organelles in vEM using our 289 annotated volumes, 40 organelle classes, and 22 diverse cell and tissue types.
🔗 hhmi.news/410evJQ
Reposted by Diane Adjavon
Different year, different conference, same vibe.
January 28, 2025 at 9:08 PM
Different year, different conference, same vibe.
Can you spot the difference between the cells on the left and right?
Read on for the solution (and a preprint announcement)… 👇
1/6
Read on for the solution (and a preprint announcement)… 👇
1/6
January 15, 2025 at 8:12 PM
Can you spot the difference between the cells on the left and right?
Read on for the solution (and a preprint announcement)… 👇
1/6
Read on for the solution (and a preprint announcement)… 👇
1/6
Reposted by Diane Adjavon
📢📢📢
The 12th iteration of the workshop on Fine-Grained Visual Categorization will be taking place at #CVPR2025 this year:
sites.google.com/view/fgvc12/...
There is a separate call for 4 page non-archival and 8 page official CVPR proceedings papers.
The 12th iteration of the workshop on Fine-Grained Visual Categorization will be taking place at #CVPR2025 this year:
sites.google.com/view/fgvc12/...
There is a separate call for 4 page non-archival and 8 page official CVPR proceedings papers.
FGVC12 Workshop accepted to CVPR 2025, Nashville!
CALL FOR PAPERS: sites.google.com/view/fgvc12/...
We discuss domains where expert knowledge is typically required and investigate artificial systems that can efficiently distinguish a large number of very similar visual concepts.
#CVPR #CVPR2025 #AI
CALL FOR PAPERS: sites.google.com/view/fgvc12/...
We discuss domains where expert knowledge is typically required and investigate artificial systems that can efficiently distinguish a large number of very similar visual concepts.
#CVPR #CVPR2025 #AI
January 9, 2025 at 5:34 PM
📢📢📢
The 12th iteration of the workshop on Fine-Grained Visual Categorization will be taking place at #CVPR2025 this year:
sites.google.com/view/fgvc12/...
There is a separate call for 4 page non-archival and 8 page official CVPR proceedings papers.
The 12th iteration of the workshop on Fine-Grained Visual Categorization will be taking place at #CVPR2025 this year:
sites.google.com/view/fgvc12/...
There is a separate call for 4 page non-archival and 8 page official CVPR proceedings papers.
Reposted by Diane Adjavon
PLEASE SHARE: Postdoc Opportunity in Montpellier France. 18 months starting May 2025: Generative AI for Studying the Influence of Habitats on the Diversification of Bird Color Patterns. Applications and information here: tinyurl.com/2368teak
@evoldir.bsky.social
@evoldir.bsky.social
January 8, 2025 at 10:52 AM
PLEASE SHARE: Postdoc Opportunity in Montpellier France. 18 months starting May 2025: Generative AI for Studying the Influence of Habitats on the Diversification of Bird Color Patterns. Applications and information here: tinyurl.com/2368teak
@evoldir.bsky.social
@evoldir.bsky.social
Reposted by Diane Adjavon
We're at #CellBio2024!
Come visit us in the exhibit hall to learn more about Beautiful Biology, AI@HHMI, our joint graduate programs with Johns Hopkins, our Theory Fellow program, a fun CellMap challenge, and many open positions across all of @hhmi.bsky.social.
Come visit us in the exhibit hall to learn more about Beautiful Biology, AI@HHMI, our joint graduate programs with Johns Hopkins, our Theory Fellow program, a fun CellMap challenge, and many open positions across all of @hhmi.bsky.social.
December 17, 2024 at 3:38 PM
We're at #CellBio2024!
Come visit us in the exhibit hall to learn more about Beautiful Biology, AI@HHMI, our joint graduate programs with Johns Hopkins, our Theory Fellow program, a fun CellMap challenge, and many open positions across all of @hhmi.bsky.social.
Come visit us in the exhibit hall to learn more about Beautiful Biology, AI@HHMI, our joint graduate programs with Johns Hopkins, our Theory Fellow program, a fun CellMap challenge, and many open positions across all of @hhmi.bsky.social.