Anwai Archit

PhD Candidate at @cppape lab. Completed @MASTER_MAIA.

[Anwai Archit @AnwaiArchit]

μsam is live in Nature Methods!🥳

Huge thanks to @cppape for being the absolute best PI, guiding me through every step in this journey, @rita_strack for amazing handling of our paper & all reviewers for helping us strengthen μsam.

Go check our tool and paper right away!😉🧵

[Constantin Pape @cppape]

After a long journey, Segment Anything for Microscopy is now published in Nature Methods! We significantly improve SAM for interactive and automatic segmentation in light and electron microscopy and build a user-friendly tool. https://t.co/HL19SGMdNt

[Constantin Pape @cppape]

How can we use foundation models such as (micro)SAM to improve electron microscopy segmentation? Check out our preprint! We found substantial improvements for nucleus, mito, and neurite-segmentation using initialization and semi-supervised learning with foundation models.

[Anwai Archit @AnwaiArchit]

There are exciting opportunities and foreseeable clinical applications of vision foundation models for biomedical image analysis! The MIDL Community did seem excited, and so are we! (some amazing follow-up applications coming soon, keep an eye open 😉)

[Anwai Archit @AnwaiArchit]

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!🧵

[Anwai Archit @AnwaiArchit]

And both of our efforts and these beautiful presentations at #MIDL2025 have been successful due to immense efforts from our amazing lab members, Carolin Teuber and Titus Griebel!

And of-course @cppape being the absolute best PI, as always! (I can't say this enough tbh)!

[Constantin Pape @cppape]

Are you looking for an exciting position at the intersection of super-resolution microscopy and AI? Then check out the PhD and PostDoc position we offer for a joint project with the Group of Stephan Hell at MPI Göttingen. Please RT, read on for links and details.

[Nature Methods @naturemethods]

A nice advance for imaging-based spatially resolved transcriptomics from the Weigert and La Manno labs. Spotiflow uses deep learning for subpixel-accurate spot detection in diverse 2D and 3D images. https://t.co/qVGlT7MXYC

[Constantin Pape @cppape]

Announcing the new release v1.4.0 of microSAM. The main changes are:
1. Simplified installation on windows.
2. Preliminary support for automatic tracking.
3. Improved interface for model selection.
Read on for a quick summary of the changes.

[Anwai Archit @AnwaiArchit]

Another feather for Segment Anything for Microscopy. We made it to the cover for @naturemethods!

And all thanks to our amazing Sebastian for this! <3

[Nature Methods @naturemethods]

Our March issue is now live! 🥳
https://t.co/ODK1Eqq2bJ

The cover represents the process of cell and organelle segmentation by Segment Anything for Microscopy.
Paper here: https://t.co/eFVi5XB4Ar

Cover by Sebastian von Haaren.

[Fabian Isensee @FabianIsensee1]

nnU-Net v2.6 released!
Most important change: Rework of the preprocessed data format 🚀 We now use Blosc2 for partially reading compressed files! Faster IO with less disk space required. Many thanks to Jan Sellner from @DKFZ_IMSY_lab and the @Blosc2 team for their amazing help!

[Anwai Archit @AnwaiArchit]

It was soooo much fun to brainstorm solutions with everyone, together!❤️

#EMBLDeepLearning

[EMBL Events @EMBLEvents]

That's a wrap for #EMBLDeepLearning 🌠

A huge thank you to everyone who attended this advanced course 🙌 We hope the hands-on element of applying deep learning-based methods to your own data and image analysis problems was useful. Until next time!

[Constantin Pape @cppape]

Because we have seen these improvements and due to popular demand, we have decided to start a call for community data submission to further improve our models: https://t.co/A0J08125QN. Looking forward to any feedback!

[Constantin Pape @cppape]

Our first deposition of synaptic vesicles segmentations is now in the Cryo ET Portal! We segmented vesicles in over 50 tomograms to enable analysis of membrane proteins and more.
https://t.co/O9AbcoAVhe

[Constantin Pape @cppape]

After a long journey, Segment Anything for Microscopy is now published in Nature Methods! We significantly improve SAM for interactive and automatic segmentation in light and electron microscopy and build a user-friendly tool. https://t.co/HL19SGMdNt

[Anwai Archit @AnwaiArchit]

Thank you @naturemethods for the shout-out. See the 🧵for highlights about μsam!

[Nature Methods @naturemethods]

Two absolutely fantastic bioimage analysis papers out today offering exceptional, generalizable tools for segmentation--Cellpose3 and Segment Anything for Microscopy. (1/3)

[Nature Methods @naturemethods]

Segment Anything for Microscopy (μSAM) is based on Segment Anything, the vision transformer model for image segmentation, and offers generalist models for light and electron microscopy segmentation tasks. @cppape @AnwaiArchit @DataNerdery @Sushmita_Nair
https://t.co/eFVi5XB4Ar

[Constantin Pape @cppape]

A huge thanks to all co-authors and especially
@AnwaiArchit who led this project! Also thanks to
@rita_strack or the excellent handling of our paper. Stay tuned for more updates on micro_sam in the next few days!