Colin Ophus
@cophus.bsky.social
Associate Professor at Stanford University. Using data science and electron microscopy to solve research problems. Views my own.
colab.stanford.edu
elementalmicroscopy.org
colab.stanford.edu
elementalmicroscopy.org
Our new DGP ptychography methods paper is online on the arxiv! arxiv.org/abs/2511.07795
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
November 12, 2025 at 11:15 PM
Our new DGP ptychography methods paper is online on the arxiv! arxiv.org/abs/2511.07795
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
Code + tutorial notebooks available if you want to try it out for your own ptychography experiments.
In this paper, we show that neutral gallium clusters from a Ga-FIB microscope’s liquid metal ion source can create nanopores in thin samples and damage. Because these clusters aren’t stopped by the beam blanker, your samples could be exposed to them without your knowledge!
doi.org/10.1093/mam/...
doi.org/10.1093/mam/...
August 6, 2025 at 8:55 PM
In this paper, we show that neutral gallium clusters from a Ga-FIB microscope’s liquid metal ion source can create nanopores in thin samples and damage. Because these clusters aren’t stopped by the beam blanker, your samples could be exposed to them without your knowledge!
doi.org/10.1093/mam/...
doi.org/10.1093/mam/...
Another cool scattering matrix inversion paper lead by Emmanuel Terzoudis-Lumsden and Scott Findlay:
arxiv.org/abs/2506.21004
arxiv.org/abs/2506.21004
June 27, 2025 at 8:05 AM
Another cool scattering matrix inversion paper lead by Emmanuel Terzoudis-Lumsden and Scott Findlay:
arxiv.org/abs/2506.21004
arxiv.org/abs/2506.21004
Another week, another great paper led by @stephanieribet.bsky.social !
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
June 16, 2025 at 1:57 AM
Another week, another great paper led by @stephanieribet.bsky.social !
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
Multi-angle precession electron diffraction (MAPED): a versatile approach to 4D-STEM precession
arxiv.org/abs/2506.11327
Serial precession finally!
@materials-mrs.bsky.social great job with the badge pickup guys - I think there are only 1000+ people ahead of me in line. And I tried to pick it up last night and was turned away.
April 7, 2025 at 3:45 PM
@materials-mrs.bsky.social great job with the badge pickup guys - I think there are only 1000+ people ahead of me in line. And I tried to pick it up last night and was turned away.
Beautiful day with the dish broadcasting a rainbow!
March 2, 2025 at 3:59 PM
Beautiful day with the dish broadcasting a rainbow!
Nanobeam phase mapping from simulated data (so we know the ground truth) - it's a great day for open source!!
January 30, 2025 at 10:03 PM
Nanobeam phase mapping from simulated data (so we know the ground truth) - it's a great day for open source!!
Nice write up of collaborative work on soft semiconductors between my group and the Salleo and Minor groups - work let by Yael Tsarfati!
engineering.stanford.edu/news/researc...
www.nature.com/articles/s41...
engineering.stanford.edu/news/researc...
www.nature.com/articles/s41...
January 4, 2025 at 6:58 PM
Nice write up of collaborative work on soft semiconductors between my group and the Salleo and Minor groups - work let by Yael Tsarfati!
engineering.stanford.edu/news/researc...
www.nature.com/articles/s41...
engineering.stanford.edu/news/researc...
www.nature.com/articles/s41...
More interactive figures!!
December 24, 2024 at 3:58 AM
More interactive figures!!
First live hockey game in a very long time - Vancouver vs Ottawa, a chaotic 2:2 after the 1st!
December 22, 2024 at 4:00 AM
First live hockey game in a very long time - Vancouver vs Ottawa, a chaotic 2:2 after the 1st!
Simulating electron diffraction combining precession and dynamical scattering!
December 7, 2024 at 11:34 PM
Simulating electron diffraction combining precession and dynamical scattering!
Great day for running the dish!
December 7, 2024 at 11:30 PM
Great day for running the dish!
You're not wrong! But sometimes the real experiment can get close - (d) is the experiment, (e) is the simulation, from doi.org/10.1021/acsn...
Also one of the great things about diffraction is it's ray more robust to aerobically-inclined neighbors!
Also one of the great things about diffraction is it's ray more robust to aerobically-inclined neighbors!
December 7, 2024 at 3:52 PM
You're not wrong! But sometimes the real experiment can get close - (d) is the experiment, (e) is the simulation, from doi.org/10.1021/acsn...
Also one of the great things about diffraction is it's ray more robust to aerobically-inclined neighbors!
Also one of the great things about diffraction is it's ray more robust to aerobically-inclined neighbors!
Moire diffraction patterns! (simulated)
December 6, 2024 at 7:03 PM
Moire diffraction patterns! (simulated)
USA is an extreme outlier in life expectancy vs healthcare spending: www.reddit.com/r/economicCo...
December 6, 2024 at 3:04 AM
USA is an extreme outlier in life expectancy vs healthcare spending: www.reddit.com/r/economicCo...
Folks who give scientific talks on diffraction - here is a tutorial for rendering a physics demo movie using matplotlib and numpy, which you can run entirely in colab:
drive.google.com/file/d/1uBq6...
I show how to drawing pseudo-3D atoms in another tutorial:
drive.google.com/file/d/1uUir...
drive.google.com/file/d/1uBq6...
I show how to drawing pseudo-3D atoms in another tutorial:
drive.google.com/file/d/1uUir...
December 2, 2024 at 3:07 AM
Folks who give scientific talks on diffraction - here is a tutorial for rendering a physics demo movie using matplotlib and numpy, which you can run entirely in colab:
drive.google.com/file/d/1uBq6...
I show how to drawing pseudo-3D atoms in another tutorial:
drive.google.com/file/d/1uUir...
drive.google.com/file/d/1uBq6...
I show how to drawing pseudo-3D atoms in another tutorial:
drive.google.com/file/d/1uUir...
In our new paper, we describe a missing type of Dzyaloshinskii–Moriya interaction that stabilizes in-plane magnetic chirality, enabling the creation and control of topological textures like merons and bimerons with ultra-low DMI strengths!
doi.org/10.1038/s414...
doi.org/10.1038/s414...
December 1, 2024 at 12:25 AM
In our new paper, we describe a missing type of Dzyaloshinskii–Moriya interaction that stabilizes in-plane magnetic chirality, enabling the creation and control of topological textures like merons and bimerons with ultra-low DMI strengths!
doi.org/10.1038/s414...
doi.org/10.1038/s414...
November 15, 2024 at 11:21 PM