Federico Gasparoli
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fedegasparoli.bsky.social
Federico Gasparoli
@fedegasparoli.bsky.social
700 followers 82 following 0 posts
🔬🧑‍💻 Research Associate - Image Analysis Colaboratory @ Harvard Medical School
Posts Replies Media Videos
Reposted by Federico Gasparoli
bethcimini.bsky.social
Just 4 days until the start of I2K and its 33 totally free image analysis tutorials and events! Please share with your "home networks", especially early career researchers - the videos will be amazing and high-impact no matter how many people attend live, BUT (1/x)
A fluorescent embryo on black text, with the words Halfway to I2K: Virtual Tutorials on Image Analysis November 17-19, 2025 Virtual Conference for beginners to developers i2kconference.org Image Credit - "Sweet Embryo",Travis D. Carney, BINA Image Contest 2024
November 13, 2025 at 2:32 PM
Reposted by Federico Gasparoli
lhinderling.bsky.social
🔬🧠 Our paper on smart microscopy & the issue of interoperability! www.biorxiv.org/content/10.1... LONG THREAD WARNING: Smart microscopy uses real-time image analysis to automatically guide the acquisition or perturbation of the sample (closed feedback-control loop). Many applications exist:
Figure legend: Categories and capabilities of smart microscopy systems integrating real-time image analysis and feedback control. Top: Smart microscopy workflows can be classified based on the driving logic behind decision-making: Event-driven (reacting to rare biological events), Outcome-driven (using feedback-control to steer biological systems toward a desired state), Quality-driven (optimizing signal quality or imaging metrics), and Information-driven (guided by models that predict which measurements/perturbations will yield the most informative data). Middle: Central feedback loop between the microscope and an image analysis system, which continuously exchanges images and commands to guide acquisition dynamically. Bottom: Key control actions enabled by smart microscopy: adjusting imaging modality (e.g. switching from brightfield to fluorescence, adjusting sampling rate), repositioning the field of view (e.g. tracking, drift correction), optimizing acquisition settings (e.g. adaptive optics), and performing photomanipulation (e.g. FRAP, ablation, optogenetics).
August 21, 2025 at 2:22 PM
Reposted by Federico Gasparoli
sciencedoodles.bsky.social
Check out our amazing #bobiac2025 cohort! Was a joy to teach this group! Thanks @bioimagingna.bsky.social for generously supporting this 6 week bioimage analysis w/Python course!
July 29, 2025 at 6:20 PM
Reposted by Federico Gasparoli
hms-iac.bsky.social
Day 1 of #bobiac2025 🐍

The day started strong with @talley.codes speaking about the Python ecosystem and uv. Students then gave short talks about their research (#coolscience). It was then time to code in Python with @sciencedoodles.bsky.social!
July 14, 2025 at 8:28 PM
Reposted by Federico Gasparoli
hms-iac.bsky.social
‼️3 days left to apply to the Boston Bioimage Analysis Course (BoBiAC)! 💻

Get started w/Python & learn to analyze fluorescence microscopy images — no programming experience required!

Fee waivers available!

🗓️ Apply by June 1st!
🌐 iac.hms.harvard.edu/bobiac/2025/
May 30, 2025 at 3:16 PM
Reposted by Federico Gasparoli
talley.codes
for you other colorblind coders out there, tired of missing the red X in your github actions logs

.color-fg-danger, .fgColor-danger {color: magenta !important;}
.octicon-x {color: magenta !important;}

you're welcome
custom github css
May 21, 2025 at 6:32 PM
Reposted by Federico Gasparoli
hms-iac.bsky.social
💻 Apply to our beginner-friendly Boston Bioimage Analysis Course!

Get started with Python and learn to analyze fluorescence microscopy images — no coding experience required!

Fee waivers available thanks to funding from @bioimagingna.bsky.social!

🗓️ Apply June 1st!
iac.hms.harvard.edu/bobiac/2025/
May 8, 2025 at 2:39 PM
Reposted by Federico Gasparoli
hms-iac.bsky.social
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...
May 7, 2025 at 3:59 PM
Reposted by Federico Gasparoli
bethcimini.bsky.social
BIG NEWS - for the first time ever, we're running a Bioimage Analysis Beginnings Bootcamp. Learn #bioimageanalysis from awesome folks, and gain familiarity with some new tools as well as how to pick the right tool in the first place. Aug 4th-8th - apply here (soon!) forms.gle/d2fCXsrWHVP8...
Ad for the Bioimage Analysis Beginnings Bootcamp at the Broad Institute. Where & When Broad Institute, 415 Main Street, Cambridge MA (in-person only) Monday–Friday, August 4–8, 20259:00 AM – 5:00 PM About the Bootcamp Learn core bioimage analysis skills using open-source tools for light microscopy in this hands-on, in-person course. The Bootcamp covers annotation, segmentation, and deep learning fundamentals. Fee: $600 (Academic/Non-Profit) | $1000 (Industry/For-Profit) For more information email ImagingAdmin@broadinstitute.org
May 1, 2025 at 9:22 PM
Reposted by Federico Gasparoli
sciencedoodles.bsky.social
New to bioimage analysis & Python? Want to quantify fluorescence microscopy images, explore segmentation & classification, & try colocalization analysis using Python?

If so, this course is for you! Apply by June 1st! 🔬💻https://iac.hms.harvard.edu/bobiac/2025
April 22, 2025 at 3:10 PM
Reposted by Federico Gasparoli
murriwurri.bsky.social
Can highly recommend! Not only is Python one of the most versatile tools in bioimage analysis, but bioimage analysis itself is also an excellent way for visual learners to learn and improve their Python skills! And it is led by fantastic people!
hms-iac.bsky.social HMS Image Analysis Collaboratory @hms-iac.bsky.social · Apr 22
‼BREAKING‼
We’ve secured new funding for the Boston Bioimage Analysis Course (BoBiAC) this July at Harvard Med School! Course fees down 37%, with fee waivers for academic applicants, for an intensive hands-on intro to bioimage analysis with Python!

Apply by June 1st!
iac.hms.harvard.edu/bobiac/2025
April 22, 2025 at 3:32 PM
Reposted by Federico Gasparoli
hms-iac.bsky.social
‼BREAKING‼
We’ve secured new funding for the Boston Bioimage Analysis Course (BoBiAC) this July at Harvard Med School! Course fees down 37%, with fee waivers for academic applicants, for an intensive hands-on intro to bioimage analysis with Python!

Apply by June 1st!
iac.hms.harvard.edu/bobiac/2025
April 22, 2025 at 2:55 PM
Reposted by Federico Gasparoli
focalplane.bsky.social
Are you looking to boost your bioimage analysis skills? If so, check out the Boston Bioimage Analysis Course run by @hms-iac.bsky.social and @citehms.bsky.social!
Apply by 16 May 2025
focalplane.biologists.com/2025/04/10/b...
BoBiAC logo incorporating a laptop Boston Bioimage Analysis Course | 2025
April 17, 2025 at 3:37 PM
Reposted by Federico Gasparoli
simonfn.bsky.social
Please join in-person if you are nearby, or by Zoom if not.
hms-iac.bsky.social HMS Image Analysis Collaboratory @hms-iac.bsky.social · Apr 14
✨We are proudly hosting 𝐏𝐫𝐨𝐟. 𝐒𝐢𝐱𝐢𝐚𝐧 𝐘𝐨𝐮 (MIT)✨

“𝐂𝐨𝐦𝐩𝐮𝐭𝐚𝐭𝐢𝐨𝐧𝐚𝐥 𝐚𝐱𝐢𝐚𝐥 𝐝𝐞𝐛𝐥𝐮𝐫𝐫𝐢𝐧𝐠 𝐟𝐨𝐫 𝐢𝐬𝐨𝐭𝐫𝐨𝐩𝐢𝐜 𝟑𝐃 𝐦𝐢𝐜𝐫𝐨𝐬𝐜𝐨𝐩𝐲”

𝐀𝐩𝐫𝐢𝐥 𝟐𝟒𝐭𝐡 @ 𝟏𝟏 𝐚𝐦 𝐄𝐃𝐓 (𝐁𝐨𝐬𝐭𝐨𝐧 𝐭𝐢𝐦𝐞, 𝐔𝐒𝐀)

Join us on Zoom!

harvard.zoom.us/j/9307790905...
Abstract: Three-dimensional subcellular imaging is often hampered by diffraction limits in thick, heterogeneous tissues and invalid assumptions about data distribution and imaging systems. We introduce SSAI-3D, a weakly physics-informed, domain-shift-resistant framework that robustly achieves isotropic 3D imaging. Demonstrations in various label-free samples, plus validation on publicly available 3D datasets with unknown blurring and noise, confirm its potential for more accurate subcellular analysis.
April 15, 2025 at 10:06 AM
Reposted by Federico Gasparoli
hms-iac.bsky.social
✨We are proudly hosting 𝐏𝐫𝐨𝐟. 𝐒𝐢𝐱𝐢𝐚𝐧 𝐘𝐨𝐮 (MIT)✨

“𝐂𝐨𝐦𝐩𝐮𝐭𝐚𝐭𝐢𝐨𝐧𝐚𝐥 𝐚𝐱𝐢𝐚𝐥 𝐝𝐞𝐛𝐥𝐮𝐫𝐫𝐢𝐧𝐠 𝐟𝐨𝐫 𝐢𝐬𝐨𝐭𝐫𝐨𝐩𝐢𝐜 𝟑𝐃 𝐦𝐢𝐜𝐫𝐨𝐬𝐜𝐨𝐩𝐲”

𝐀𝐩𝐫𝐢𝐥 𝟐𝟒𝐭𝐡 @ 𝟏𝟏 𝐚𝐦 𝐄𝐃𝐓 (𝐁𝐨𝐬𝐭𝐨𝐧 𝐭𝐢𝐦𝐞, 𝐔𝐒𝐀)

Join us on Zoom!

harvard.zoom.us/j/9307790905...
Abstract: Three-dimensional subcellular imaging is often hampered by diffraction limits in thick, heterogeneous tissues and invalid assumptions about data distribution and imaging systems. We introduce SSAI-3D, a weakly physics-informed, domain-shift-resistant framework that robustly achieves isotropic 3D imaging. Demonstrations in various label-free samples, plus validation on publicly available 3D datasets with unknown blurring and noise, confirm its potential for more accurate subcellular analysis.
April 14, 2025 at 8:18 PM
Reposted by Federico Gasparoli
emiglietta.bsky.social
Great opportunity if you're in the Boston area and want to learn about bioimage analysis in Python!

forum.image.sc/t/boston-bio...
Boston Bioimage Analysis Course (BoBiAC)
The Image Analysis Collaboratory and the Core for Imaging Technology & Education at Harvard Medical School are organizing the 💻 Boston Bioimage Analysis Course (BoBiAC). Join us in July for a 6-day in...
forum.image.sc
April 11, 2025 at 5:41 PM
Reposted by Federico Gasparoli
qiatcshl.bsky.social
Congratulations to students @nancypaniagua.bsky.social & Michal for placing 1st & 2nd place in our @ilastik-team.bsky.social pixel classifier challenge to segment with the least amount of annotations! #lazyannotationsftw
April 3, 2025 at 2:44 PM
Reposted by Federico Gasparoli
lycasworks.bsky.social
Expansion microscopy of a tardigrade
April 1, 2025 at 2:31 AM
Reposted by Federico Gasparoli
qiatcshl.bsky.social
It's TIRF time again at QI!!! 🎉 🔬Check out @jencwaters.bsky.social's infamous TIRF demo to understand the principle behind total internal reflection vs refraction! #gonetirfing #criticallyawesome
March 31, 2025 at 3:22 PM
Reposted by Federico Gasparoli
qiatcshl.bsky.social
QI 2025 student Federico, a computer scientist, oiling an immersion lens for the first time. 💪
March 27, 2025 at 6:35 PM
Reposted by Federico Gasparoli
lycasworks.bsky.social
Demonstrating how local environment impacts fluorescence 🔬🧪🥼@qiatcshl.bsky.social
March 26, 2025 at 2:53 AM
Reposted by Federico Gasparoli
florianjug.bsky.social
Love this place… 🥰
@qiatcshl.bsky.social @cshlaboratory.bsky.social
March 28, 2025 at 7:10 PM
Reposted by Federico Gasparoli
qiatcshl.bsky.social
I spy with my little eye...a sneak peek of our light sheet microscopy lab samples! Perks of being a
@cshlnews.bsky.social course is access to lots of great sample collecting spots! #catchoftheday #tardigrades
March 29, 2025 at 2:35 PM
Reposted by Federico Gasparoli
florianjug.bsky.social
Now that looks like a great new course to check out!
More python 🐍 heavy than other courses I know… which is great to have! 👍
Check it out, sign up, learn!!! 🤩
hms-iac.bsky.social HMS Image Analysis Collaboratory @hms-iac.bsky.social · Mar 24
💻 Announcing the Boston Bioimage Analysis Course — BoBiAC!
Join us this July at Harvard Medical School in Boston for a 6-day deep dive into bioimage analysis with Python, hosted by the IAC and CITE.
Apply by May 16th, 2025!
March 28, 2025 at 6:00 PM
Reposted by Federico Gasparoli
simonfn.bsky.social
This summer, we are running a one-week intensive workshop on Python-based BioImage Analysis.
Are there better ways to spend 6 days in mid-July in Boston?Probably.
Would you learn as much as you will here? Probably not.

Apply here:
iac.hms.harvard.edu/bobiac/2025
March 24, 2025 at 10:03 PM