Stefania Marcotti
@lankylaste.bsky.social
๐ค 931
๐ฅ 550
๐ 17
Data and image analysis for all things bio | Computational tinkerer | Researcher | Bioimage analyst
pinned post!
New paper out! We share our experiences from conducting
#bioimageanalysis
workshops, using open-source software and building a community around training:
doi.org/10.1002/jemt...
Thanks to the dream team of rockstars,
@david-j-barry.bsky.social
,
@martinjones.bsky.social
and Tom Slater
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Enhancing Research Through Image Analysis Workshops: Experiences and Best Practices
This graphical abstract illustrates the structure of interactive image analysis workshops, where participants engage in hands-on learning with open-source tools under expert guidance to improve resea...
http://doi.org/10.1002/jemt.24769
about 1 year ago
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โจNew Year's resolutions involve learning something new?โจ Then apply for our โIntroduction to Image Analysisโ workshop in Cardiff in May 2026! Deadline for applications is January 16th. ๐โฌ๏ธ
www.rms.org.uk/rms-event-ca...
@royalmicrosoc.bsky.social
@david-j-barry.bsky.social
@martinjones.bsky.social
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Introduction to Image Analysis 2026
https://www.rms.org.uk/rms-event-calendar/2026-events/introduction-to-image-analysis-2026.html
about 16 hours ago
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Stefania Marcotti
Florian Jug
5 days ago
๐จ Alarm!!! ๐จ AI/ML course for microscopy image analysis!!! ๐ง In 2026 at Janelia (
@hhmijanelia.bsky.social
), no tuition, housing and meals provided! Isnโt that borderline unbelievable?!? 20 students, ~14 TAs and lecturers ๐๏ธ June 4-18 2026 โ๏ธ Jan 15 2026 โ๏ธ ๐ pls!!
www.janelia.org/you-janelia/...
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Deep Learning for Microscopy Image Analysis
Topics The following will be covered extensively during lectures, exercises, and project work: Image denoising and restoration (fully supervised and self-supervised) Image translation (e.g.,
https://www.janelia.org/you-janelia/conferences/bootcamp-course-on-deep-learning-for-microscopy-image-analysis
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Stefania Marcotti
Royal Microscopical Society
12 days ago
*APPLY NOW* for Introduction to Image Analysis 2026! ๐๐ฌ Great workshop designed to empower researchers with the necessary skills and tools to confidently analyse their data. Apply by Fri, 16 Jan:
https://ow.ly/hHRi50XNaG4
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Stefania Marcotti
eurobioimaging.bsky.social
12 days ago
โจ We are recruiting the next cohort of
#EuroBioImaging
Scientific Ambassadors! If you are passionate about open science & imaging and want to enhance your network or learn new skills, please apply! ๐๏ธ Deadline: Jan 30
www.eurobioimaging.eu/scientific-a...
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Stefania Marcotti
Assaf Zaritsky
15 days ago
๐จ New @biorxivpreprint! ๐งฌ๐ป Can the spatial architecture of chromatin predict chemoresponse? We integrated FLIM imaging + ML to show that spatially organized "open" chromatin states in pre-treatment biopsies predict resistance in TNBC.
www.biorxiv.org/content/10.6...
๐งต 1/3
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Stefania Marcotti
Crick Image Analysis Team
16 days ago
Less than a month to go before applications close for the Introduction to Image Analysis workshop in Cardiff (deadline 16th January)!
@royalmicrosoc.bsky.social
www.rms.org.uk/rms-event-ca...
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Stefania Marcotti
Crick Image Analysis Team
22 days ago
We have a โจnew websiteโจ - go and take a look to meet our team, find out how you can work with us, and see our upcoming training events!
www.crick.ac.uk/research/pla...
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Image Analysis
The golden rule of image analysis is โgarbage in, garbage outโ, so we strongly encourage researchers to come and talk to us about their experimental plans before acquiring data.
https://www.crick.ac.uk/research/platforms-and-facilities/light-microscopy/image-analysis
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Stefania Marcotti
eurobioimaging.bsky.social
22 days ago
๐ The Image Data Community Days are back! Join us for 5 online days packed with lectures, hands-on workshops & networking sessions from ๐๏ธ April 13-17. โ Mark your calendars โ Fill in our โCollection of Interestโ form Learn more ๐ฝ
www.eurobioimaging.eu/our-events/i...
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Very excited about the journey ahead! Especially knowing that the aforementioned enthusiastic group of fellow organisers will be by my side (including
@david-j-barry.bsky.social
- I have some pretty big shoes to fill!)
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about 1 month ago
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Get your
#bioimageanalysis
journey started with this workshop! ๐Cardiff, UK ๐๏ธ18-20/05/2026
add a skeleton here at some point
about 1 month ago
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reposted by
Stefania Marcotti
Marie Held
about 1 month ago
And thatโs a wrap for the
@cbias.bsky.social
napari workshop as well. Two days of learning, working collaboratively and finished off with a presentation from each of five project groups detailing the progress they made. Organised by Rocco DโAntuono,
@giuliapaci.bsky.social
and yours truly
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reposted by
Stefania Marcotti
Crick BioImage Analysis Symposium
about 1 month ago
@david-j-barry.bsky.social
and
@lankylaste.bsky.social
wrapping up
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reposted by
Stefania Marcotti
David Gaboriau
about 1 month ago
Poster session
@cbias.bsky.social
With Rocco DโAntuono,
@david-j-barry.bsky.social
,
@martinjones.bsky.social
,
@lankylaste.bsky.social
,
@dalemoulding.bsky.social
,
@giuliapaci.bsky.social
Talking about the Train the Trainers in BioImage Analysis we did in June
@royalmicrosoc.bsky.social
DAIM
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Stefania Marcotti
Crick BioImage Analysis Symposium
about 1 month ago
And weโre off.
#CBIAS2025
6th Edition, first outside of the Crick but impressed by the localities at
@wellcomecollection.bsky.social
@david-j-barry.bsky.social
welcoming the community
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reposted by
Stefania Marcotti
Crick BioImage Analysis Symposium
about 2 months ago
Less than a week to go for
#CBIAS2025
! A few hours left to register, in person in London or online over Zoom (registration deadline on Nov 20th) Find out all the information at the link below:
www.crick.ac.uk/whats-on/cri...
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Crick BioImage Analysis Symposium 2025
https://www.crick.ac.uk/whats-on/crick-bioimage-analysis-symposium-2025
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Stefania Marcotti
Crick BioImage Analysis Symposium
about 2 months ago
Last chance to register for
#CBIAS2025
, registrations are closing on November 20th - join us to discuss all things
#bioimageanalysis
and donโt miss a great networking opportunity! Will you be there?
www.crick.ac.uk/whats-on/cri...
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Crick BioImage Analysis Symposium 2025
https://www.crick.ac.uk/whats-on/crick-bioimage-analysis-symposium-2025
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Stefania Marcotti
Beth Cimini ๐ฌ๐ป๐
about 2 months ago
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)
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Stefania Marcotti
Crick Image Analysis Team
about 2 months ago
Another week, another training course! We focused on
#Python
today, with our internal introductory workshop to image analysis. Well-done to all attendees! ๐ป๐ฌand thanks to the โBioinformatics and Biostatisticsโ and โSoftware Engineering and AIโ teams for helping us deliver the course ๐
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Very proud of the students for progressing very quickly over the course of the workshop! ๐ฌ๐ป And grateful to be working with an amazing team ๐โจ
@david-j-barry.bsky.social
,
@martinjones.bsky.social
,
@k-meech.bsky.social
, Sara and Cameron
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2 months ago
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Stefania Marcotti
Crick Image Analysis Team
2 months ago
All set up and ready to go for our 2-day Introduction to Image Analysis workshop for external attendees at
@crick.ac.uk
! With Sara Salgueiro Torres,
@david-j-barry.bsky.social
,
@martinjones.bsky.social
,
@k-meech.bsky.social
,
@lankylaste.bsky.social
and Cameron Shand
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Stefania Marcotti
Dave Barry
2 months ago
๐ฌ๐ง Are you based in the UK? ๐ป Do you spend a significant amount of time working on
#BioImageAnalysis
? ๐งโ๐คโ๐ง Want to spend time supporting external users? The UK BioImage Analysis Network (UK-BIAS) might be for you. Apply below before November 5th.
forms.gle/XhP15nxg2ZgW...
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Expression of Interest: UK Bioimage Analysis Network (UK-BIAS)
The UK node of Euro-BioImaging, a major European initiative providing open access to biological and biomedical imaging technologies, currently offers assistance with Biological Image Data Analysis. Ho...
https://forms.gle/XhP15nxg2ZgWwuTS9
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reposted by
Stefania Marcotti
Crick BioImage Analysis Symposium
2 months ago
A month to go! Will you be at
#CBIAS2025
? The program is almost ready, and we look forward to welcoming you in London to discuss all things
#BioImageAnalysis
, from tool development, to biomedical applications and community building. Register now! ๐โฌ๏ธ
www.crick.ac.uk/whats-on/cri...
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Crick BioImage Analysis Symposium 2025
https://www.crick.ac.uk/whats-on/crick-bioimage-analysis-symposium-2025
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...and itโs on the official Fiji/ImageJ documentation! ๐ฅน
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2 months ago
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Stefania Marcotti
Beth Cimini ๐ฌ๐ป๐
3 months ago
Halfway to I2K is BACK, friends of all kinds! Last year, 650 people attended 30+ TOTALLY FREE image analysis workshops of all kinds, across many timezones. If you make image analysis software and want to teach it, workshop submissions are open now! We'd love to have your tool highlighted.
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reposted by
Stefania Marcotti
Dave Barry
3 months ago
The provisional program for The 6th Crick Bioimage Analysis Symposium (#CBIAS2025) is live! Join us at the
@wellcomecollection.bsky.social
in London in November for incredible talks, posters and insightful discussions. Space is limited - register now!
www.crick.ac.uk/whats-on/cri...
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Stefania Marcotti
Crick BioImage Analysis Symposium
3 months ago
The program for the
#CBIAS2025
is now live โ space is limited, so register now to secure your spot! 24th-25th Nov, Wellcome Trust, London (UK) - see you there! ๐โฌ๏ธ
www.crick.ac.uk/whats-on/cri...
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Stefania Marcotti
Danish BioImaging
4 months ago
The Danish BioImaging Infrastructure is hiring! We are looking for a highly motivated and independent Image Analysis Application Specialist with a strong bioimage analysis background and drive to collaborate in multidisciplinary environments More information
candidate.hr-manager.net/ApplicationI...
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reposted by
Stefania Marcotti
Dave Barry
4 months ago
Today we say farewell to Alicja Skรณrkowska, who returns to
@jagiellonskiuni.bsky.social
after a very productive 6 month stay with us. Alicja will be missed! However, we also welcome
@lankylaste.bsky.social
, who is now officially a
@crick.ac.uk
person!
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reposted by
Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
Last few days to submit an abstract for
#CBIAS2025
(deadline 31/08)! We invite submissions on all topics related to
#bioimageanalysis
, from new software tools to discoveries made using existing methods. Early career researchers are especially encouraged to submit!
www.crick.ac.uk/whats-on/cri...
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Applications close at the end of the week!
add a skeleton here at some point
4 months ago
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Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
Last but not least for our
#CBIAS2025
guest speaker line-up is Ilaria Testa, fellow at
@scilifelab.se
. Ilaria and team develop and apply novel super resolution microscopy approaches to understand fundamental biological processes relevant for health and disease ๐๐
www.scilifelab.se/researchers/...
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reposted by
Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
We continue the
#CBIAS2025
speaker intros with
@jytinevez.bsky.social
, research engineer and core facility manager at the Institut Pasteur. Jean-Yves is one of the minds behind TrackMate and is part of F-BIAS, a federation of bioimage analysts across France ๐๐
research.pasteur.fr/fr/member/je...
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Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
Next guest speaker at
#CBIAS2025
is Christa Walther, community manager for
@globias.bsky.social
โฌ. GloBIAS is a worldwide association that brings together all those interested in
#bioimageanalysis
, offering opportunities for knowledge exchange, events, training, and resources. ๐๐
www.globias.org
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Home
News Next BIA seminar series: "Behind the Scenes at SciLifeLab BIIF: Lessons from Managing a National Bioimage Analysis Support Unit" by Anna Klemm on 27th of August, 2pm CEST GloBIAS held its inaugu...
https://www.globias.org/
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Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
At
#CBIAS2025
we will also hear from Ewa Paluch from
@cam.ac.uk
. Ewa and their team take an interdisciplinary approach combining biology, imaging, mechanical testing and physical modelling to investigate the basic principles underlying animal cell morphogenesis ๐๐
www.pdn.cam.ac.uk/directory/ew...
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Professor Ewa K Paluch | Department of Physiology, Development and Neuroscience
https://www.pdn.cam.ac.uk/directory/ewa-paluch
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Stefania Marcotti
Virginie Uhlmann
4 months ago
Once is an exception, twice is a trend, thrice is a tradition! Save the date for our now-traditional annual OME-NGFF extravaganza in Zurich! Whether youโve just heard about OME-NGFF and are curious to learn more or if you are working with it every day, there is something for everyone this year!
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Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
We continue the
#CBIAS2025
speaker line-up with Dominik Kutra, senior research software engineer in the
@ilastik-team.bsky.social
. Dominik is one of the core developers of Ilastik, a user-friendly software that leverages machine learning algorithms to easily analyse bioimages ๐๐
www.ilastik.org
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ilastik - ilastik
https://www.ilastik.org/
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Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
Next up at
#CBIAS2025
is
@helenajambor.bsky.social
โฌ from the University of Applied Sciences of the Grisons. Helena researches data visualisation in the life sciences, combining their expertise with large datasets and their interest in data communication ๐๐
helenajamborwrites.netlify.app/about
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HelenaJamborWrites - About
https://helenajamborwrites.netlify.app/about
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Stefania Marcotti
Crick BioImage Analysis Symposium
4 months ago
Our first
#CBIAS2025
invited speaker is Andrew French from
@uniofnottingham.bsky.social
โฌ, who specialises in using AI to understand images. Their research interests include image analysis of plants and complex structures and image capture automation ๐๐
www.nottingham.ac.uk/biosciences/...
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People - The University of Nottingham
https://www.nottingham.ac.uk/biosciences/people/andrew.p.french
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Stefania Marcotti
Dave Barry
5 months ago
ONLY 11 MORE DAYS TO SUBMIT AN ABSTRACT FOR
#CBIAS2025
!!!
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Stefania Marcotti
Crick BioImage Analysis Symposium
5 months ago
๐ข After
#CBIAS2025
, join our hands-on 2-day napari training by
@crick.ac.uk
@ucl.ac.uk
@liverpooluni.bsky.social
From conda to plugins to Jupyter, practicals on real data with expert guidance. For Python/ImageJ coders. Apply by 1 Sept โ limited to 30!
crick.ac.uk/whats-on/cbias-napari-workshop-2025
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CBIAS napari workshop 2025
http://crick.ac.uk/whats-on/cbias-napari-workshop-2025
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reposted by
Stefania Marcotti
Crick BioImage Analysis Symposium
5 months ago
Abstract submission
#CBIAS2025
is closing on August 31st - we invite submissions on all topics related to
#bioimageanalysis
: new tools, biological discoveries using existing methods, and anything in between. Early-career researchers especially encouraged to submit!
www.crick.ac.uk/whats-on/cri...
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Crick BioImage Analysis Symposium 2025
https://www.crick.ac.uk/whats-on/crick-bioimage-analysis-symposium-2025
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Ready to automate your
#microscopy
#imageanalysis
tasks? Applications are now open for our next "Introduction to Image Analysis" training course, in London at the
@crick.ac.uk
on October 27th-28th, 2025! ๐ฌ๐ป More info โฌ๏ธ
www.crick.ac.uk/whats-on/int...
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Introduction to image analysis
https://www.crick.ac.uk/whats-on/introduction-to-image-analysis-0
5 months ago
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Stefania Marcotti
Crick BioImage Analysis Symposium
6 months ago
Special early bird rate registrations for
#CBIAS2025
are closing soon, on July 20th! Register early to get your discounted ticket for this year's edition, happening at the Wellcome Trust in London on November 24th and 25th
www.crick.ac.uk/whats-on/cri...
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Crick BioImage Analysis Symposium 2025
https://www.crick.ac.uk/whats-on/crick-bioimage-analysis-symposium-2025
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Abstract submission for the Crick BioImage Analysis Symposium
#CBIAS2025
is now open until August 31st! If you are interested in bioimage analysis, whether as a user or methods developer, join us in London on November 24th-25th - we look forward to seeing you there!
www.crick.ac.uk/whats-on/cri...
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Crick BioImage Analysis Symposium 2025
https://www.crick.ac.uk/whats-on/crick-bioimage-analysis-symposium-2025
6 months ago
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Stefania Marcotti
David Gaboriau
7 months ago
A great day of thinking about teaching bioimage analysis and designing courses at the
#TrainTheTrainerBIA2025
@martinjones.bsky.social
@makaefer.bsky.social
@lankylaste.bsky.social
@giuliapaci.bsky.social
A well deserved fresh drink!
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Stefania Marcotti
BioImagingUK
7 months ago
๐ฌ๐๐ ๐๐ฎ๐ซ๐จ-๐๐ข๐จ๐๐ฆ๐๐ ๐ข๐ง๐ ๐๐จ๐๐ ๐ฌ๐๐๐ฎ๐ซ๐๐ฌ ยฃ๐.๐๐ from
@ukri.org
This will: -Democratise access to cutting-edge biological and biomedical imaging -Support 200+ researchers yearly -Boost open science Thanks to BBSRC and MRC for this major upgrade! ๐ Congrats to the entire UK Node team ๐ Link in repliesโฌ๏ธ
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Stefania Marcotti
napari
7 months ago
Ok guys **nobody open any more issues** ๐
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reposted by
Stefania Marcotti
Crick BioImage Analysis Symposium
8 months ago
๐จ ๐ฃ Registration for
#CBIAS2025
is now open! 24-25th November at the Wellcome Collection, special early bird registration rate until 20th July
www.crick.ac.uk/whats-on/cri...
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Crick BioImage Analysis Symposium 2025
https://www.crick.ac.uk/whats-on/crick-bioimage-analysis-symposium-2025
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Stefania Marcotti
Journal of Cell Science
8 months ago
If you need to attend a microscopy or bioimage analysis training course to support your
#cellbio
research but don't have funding, check out our JCSโFocalPlane Training Grants. ๐ฌ๐ฅ๏ธhttps://www.biologists.com/grants/jcs-focalplane-training-grants/
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Stefania Marcotti
Ignacio Arganda-Carreras
8 months ago
๐ We're hiring! We're looking for postdoc ๐ candidates to work at the intersaction of bioimage analysis ๐ฅ๏ธ๐ฌ, tissue biomechanics ๐งซ, and neuroscience ๐ง . ๐ Application deadline: 2025/06/02 ๐ Duration: July 2025 - December 2026 (for now) Come work with us! ๐ค
dipc.ehu.eus/en/dipc/join...
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Joint Postdoctoral Position in Biophysics โ Bioimage Analysis / AI / Neuroscience
https://dipc.ehu.eus/en/dipc/join-us/joint-postdoctoral-position-in-biophysics-2013-bioimage-analysis-ai-neuroscience
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