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Martin Jones

@martinjones

Ex-physicist in a biology institute, working on image analysis and building new hardware at the Francis Crick Institute ORCID: 0000-0003-0994-5652

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30.08.2023
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Latest posts by Martin Jones @martinjones

Including a piece by Jenny Hounsome, @h-spiers.bsky.social, @em-stp.bsky.social and me on some @crick.ac.uk outreach we've been doing over the past few years with local primary schools

09.03.2026 17:29 πŸ‘ 1 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0
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πŸ“’ UK RESEARCHERS - Ever wished you could try a completely different imaging approach on your sample but lacked access to equipment or funds?

That's exactly what the Euro-BioImaging UK Node User Access Fund is for!

Applications are open year-round, with 3 deadlines/yr:
πŸ“… 31 Mar | 31 July | 30 Nov

06.03.2026 14:13 πŸ‘ 8 πŸ” 8 πŸ’¬ 0 πŸ“Œ 0
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Excited to share our new paper (CVPR 2026 πŸš€): "MuViT: Multi-Resolution Vision Transformers for Learning Across Scales in Microscopy" which enables local predictions to use global context.
Great work led by @albertdm.bsky.social & another fun collab w @gioelelamanno.bsky.social! @scadsai.bsky.social

02.03.2026 13:42 πŸ‘ 60 πŸ” 26 πŸ’¬ 1 πŸ“Œ 2

Woohoo! So looking forward to the next iteration. 🀩

25.02.2026 11:21 πŸ‘ 3 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0

Save the date! We’re back at the @crick.ac.uk next November!

27.02.2026 17:23 πŸ‘ 3 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0
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Crick BioImage Analysis Symposium 2026

πŸ“£We’re back πŸ”¬πŸ‘€πŸ–₯️!
#CBIAS2026 returns 23–24 November 2026:
Join the bioimage analysis community to discuss advances in quantitative imaging & computational methods for image analysis. Great opportunity for early-career analysts & microscopists to present and connect.
#CBIAS2026 #BioimageAnalysis

25.02.2026 10:29 πŸ‘ 15 πŸ” 10 πŸ’¬ 0 πŸ“Œ 2
A brief introduction to the use of containers for reproducible image analysis with Dr Martin Jones
A brief introduction to the use of containers for reproducible image analysis with Dr Martin Jones YouTube video by CCP-volumeEM

Our first 'Show & Tell Series' webinar, presented last week, is now available on YouTube.

Watch here: www.youtube.com/watch?v=E-pi...

We hope it’s useful to the community - please share with anyone who may be interested #VolumeEM #Bioimaging

02.03.2026 11:16 πŸ‘ 10 πŸ” 5 πŸ’¬ 0 πŸ“Œ 0
A comic from the XKCD webcomic showing the effects of CO2 emissions, with a temperature scale indicating the effect of temperature changing in 4.5 degree centigrade steps, from an ice age 20,000 years ago to possible future scenarios.

A comic from the XKCD webcomic showing the effects of CO2 emissions, with a temperature scale indicating the effect of temperature changing in 4.5 degree centigrade steps, from an ice age 20,000 years ago to possible future scenarios.

An important focus of @cosec-ukri.bsky.social activities like #CCPvolumeEM and other CCPs is the environmental impact of scientific computing.

@epcc.bsky.social have teaching materials at epcced.github.io/2026-02-26_G...

Comic image from xkcd.com/1379/
#GreenHPC #GreenComputing

26.02.2026 10:35 πŸ‘ 4 πŸ” 2 πŸ’¬ 0 πŸ“Œ 0
His Royal Highness Prince William is talking with Edith Heard, who is to his left, inside a well-lit building entrance. They are both smiling and walking towards the camera.

His Royal Highness Prince William is talking with Edith Heard, who is to his left, inside a well-lit building entrance. They are both smiling and walking towards the camera.

His Royal Highness Prince William Is sitting at a round table with a group of students. They are all wearing safety glasses, and he is holding a pipette. There is a variety of scientific instruments in the middle of the table.

His Royal Highness Prince William Is sitting at a round table with a group of students. They are all wearing safety glasses, and he is holding a pipette. There is a variety of scientific instruments in the middle of the table.

His Royal Highness Prince William is sitting in front of a microscope wearing a lab coat. He is laughing while looking towards someone to his left, also in a lab coat. They are both inside a large white room.

His Royal Highness Prince William is sitting in front of a microscope wearing a lab coat. He is laughing while looking towards someone to his left, also in a lab coat. They are both inside a large white room.

His Royal Highness Prince William stands next two Edith heard, both with  arms folded across their front. He is facing and talking to three other people inside a well-lit building entrance.

His Royal Highness Prince William stands next two Edith heard, both with arms folded across their front. He is facing and talking to three other people inside a well-lit building entrance.

Thanks to His Royal Highness Prince William for visiting the Crick today to explore how education, research and innovation are helping to deliver benefits in the UK and across the world – from antimicrobial resistance to the biology underlying our mental health.

πŸ”— www.crick.ac.uk/news/2026-02...

25.02.2026 15:29 πŸ‘ 18 πŸ” 4 πŸ’¬ 0 πŸ“Œ 0
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Welcome! You are invited to join a webinar: CCP-volumeEM Show and Tell - February 2026. After registering, you will receive a confirmation email about joining the webinar. 'A brief introduction to the use of containers for reproducible image analysis' with Dr Martin Jones Abstract: Reproducibility of scientific data analysis is critical, but can be particularly challe...

Do you do image analysis?

Want to make it more robust and reproducible?

Have you heard of containers, but don't know why they’re useful, and how to use them?

@martinjones.bsky.social will explain all: crick.zoom.us/webinar/regi...

13.02.2026 11:19 πŸ‘ 10 πŸ” 6 πŸ’¬ 0 πŸ“Œ 0
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πŸ’– We join #LoveDataWeek2026 by sharing the recordings from Image Data Community Days 2025! Follow the β€œWhere’s the data?” theme with on-demand sessions on FAIR principles, analysis tools, AI & preclinical imaging.
🎬 Watch anytime here
youtube.com/playlist?lis...

11.02.2026 09:49 πŸ‘ 8 πŸ” 5 πŸ’¬ 0 πŸ“Œ 0
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Crick BioImage Analysis Symposium 2026

The next @cbias.bsky.social in London will be 23-24th November (registration and abstract submissions due to open sometime in March)
www.crick.ac.uk/whats-on/cri...

09.02.2026 09:26 πŸ‘ 1 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
image of the OpenFlexure Microscope on the left. On the right, our adapted live-cell imaging openflexure microscope with cradle to negate vibrations inside an existing incubator

image of the OpenFlexure Microscope on the left. On the right, our adapted live-cell imaging openflexure microscope with cradle to negate vibrations inside an existing incubator

Unleashing live-cell imaging for the masses!
Adapting the OpenFlexure Microscope for Affordable Live-Cell Imaging www.biorxiv.org/content/10.6...
Fits into existing incubators for time-lapse experiments & feeds into existing bioimaging analysis pipelines.
Thanks @wellcometrust.bsky.social funding

03.02.2026 14:49 πŸ‘ 44 πŸ” 16 πŸ’¬ 5 πŸ“Œ 0
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β€˜Missing link’ protein key to restoring disorganised blood vessels Understanding how the body maintains the balance between blood vessel formation and stabilisation could help treat blood vessel disorders, cancer and prevalent eye diseases.

New research from the Crick and @umontreal.ca has found the missing link between two chemical pathways that control blood vessel branching, potentially opening the door for new treatments for a currently incurable genetic bleeding disorder.

www.crick.ac.uk/news/2026-02...

05.02.2026 16:29 πŸ‘ 10 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0
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πŸ”¬UK researchers: Access cutting-edge bioimaging tech + expert support with our User Access Fund!

πŸ’· Β£5k for imaging
πŸ’· Β£2k for image analysis

Choose from 6 top UK facilities, contact them, then apply!

rms.org.uk/user-access-fund

⏰ Next deadline: 31 March
βœ… Decision in 4 weeks

Pls share!

02.02.2026 11:15 πŸ‘ 15 πŸ” 13 πŸ’¬ 1 πŸ“Œ 4
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Image-based bacterial phenotyping and antimicrobial drug discovery using smart high-throughput super-resolution microscopy at University of Warwick on FindAPhD.com PhD Project - Image-based bacterial phenotyping and antimicrobial drug discovery using smart high-throughput super-resolution microscopy at University of Warwick, listed on FindAPhD.com

iCASE PhD project available in my lab, combining microscopy method development with high throughput screening of bacteria. Applications to antibiotic drug discovery and screening for new cell division proteins. Collaboration with Cairn Research #microsky #bioimaging
www.findaphd.com/phds/project...

02.02.2026 11:11 πŸ‘ 14 πŸ” 11 πŸ’¬ 0 πŸ“Œ 1
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Data and Systems Steward Salary for this Role: From Β£43,630 with benefits, subject to skills and experience. Job Title: Data and Systems Steward Reports to: Kurt Anderson Closing Date: 08/Feb/2026 23.59 GMT Job Description: D...

We Are hiring!! πŸ‘¨β€πŸ’»πŸ‘©β€πŸ’» CALM's new Data and Systems Steward Role is live πŸŽ‰https://crick.wd3.myworkdayjobs.com/External/job/London/Data-and-Systems-Steward_R2551 closing date 8th Feb!

19.01.2026 13:17 πŸ‘ 10 πŸ” 11 πŸ’¬ 0 πŸ“Œ 0

We are hosting an #Ilastik workshop on March 27th, led by Dominik Kutra, senior research software engineer @ilastik-team.bsky.social

The course is open to students and staff at @crick.ac.uk and partner universities (@ucl.ac.uk, @kingscollegelondon.bsky.social and @imperialcollegeldn.bsky.social)

27.01.2026 15:37 πŸ‘ 11 πŸ” 9 πŸ’¬ 1 πŸ“Œ 0

Three of our early career participants wrote about their experiences at #CBIAS2025 on @focalplane.bsky.social. Check out the blog post!

13.01.2026 12:07 πŸ‘ 6 πŸ” 3 πŸ’¬ 0 πŸ“Œ 0
Crick BioImage Analysis Symposium 2025 Posters CBIAS features a mix of invited and selected talks, poster sessions, and panel discussions focused on current topics in image analysis and image processing for microscopy and computational microscopy....

The #CBIAS2025 poster collection is now available, along with associated DOIs for further dissemination. Take a look!

crick.figshare.com/collections/...

05.01.2026 10:50 πŸ‘ 10 πŸ” 6 πŸ’¬ 0 πŸ“Œ 0
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Exchanging with the BioImage Analysis Community On November 24-25 2025, Euro-BioImaging Scientific Ambassador, Virginia Silio, attended the Crick BioImage Analysis Symposium (CBIAS) 2025, held in London. The two-day event brought together around…

Another brilliant #CBIAS2025 review is out, thanks to Virginia Silio, scientific ambassador for @eurobioimaging.bsky.social and Imaging Specialist at the Centre for Molecular & Cell Dynamics @ucl.ac.uk!

www.eurobioimaging.eu/news/exchang...

28.01.2026 15:47 πŸ‘ 5 πŸ” 4 πŸ’¬ 0 πŸ“Œ 1
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EM-UKI 2026 The EM-UKI community meetings are an open forum for discussion of the latest developments and challenges in the field, suitable for both academic and commercial microscopists. The meeting will include techno bites, talks, and discussions, and also hosts the annual RMSΒ EM lecture.

πŸ”¬ EMUKI 2026 is coming up

Stratocore will be sponsoring & attending EMUKI 2026 in Dublin on 12–13 Feb, bringing together the #electronmicroscopy community to discuss facility management, technical innovation and career pathways.

πŸ”— https://f.mtr.cool/xwgppvqkeu

@royalmicrosoc.bsky.social

15.01.2026 07:02 πŸ‘ 4 πŸ” 4 πŸ’¬ 0 πŸ“Œ 0
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Crick BioImage Analysis Symposium (2025) - a review - FocalPlane Crick BioImage Analysis Symposium (2025) - a review - News

Jacqueline Chalakova, @afoix.bsky.social and @denzibubs.bsky.social share their highlights from #CBIAS2025 @cbias.bsky.social, with all three emphasising the welcoming atmosphere.
Check out the reasons that #CBIAS2026 should be in your calendar‡️
focalplane.biologists.com/2026/01/12/c...

13.01.2026 10:43 πŸ‘ 10 πŸ” 4 πŸ’¬ 0 πŸ“Œ 1
Two colleagues standing indoors, one presenting an award plaque and a glass trophy to the other against a wooden panel background.

Two colleagues standing indoors, one presenting an award plaque and a glass trophy to the other against a wooden panel background.

Applications for our Section Awards are now *OPEN*πŸ˜ƒ

These awards are chosen by each of our Scientific Committees, in recognition of outstanding scientific achievements across all forms of microscopy, imaging and flow cytometry.

Find out more and apply by 28 February: https://ow.ly/1gap50XRV7j

05.01.2026 14:16 πŸ‘ 1 πŸ” 1 πŸ’¬ 0 πŸ“Œ 0
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Introduction to Image Analysis 2026

✨New Year's resolutions involve learning something new?✨

Then apply for our β€œIntroduction to Image Analysis” workshop in Cardiff in May 2026! Deadline for applications is January 16th.

πŸ”—β¬‡οΈ
www.rms.org.uk/rms-event-ca...

@royalmicrosoc.bsky.social @david-j-barry.bsky.social @martinjones.bsky.social

02.01.2026 14:16 πŸ‘ 10 πŸ” 6 πŸ’¬ 0 πŸ“Œ 1
Announcement for the RMS-hosted Introduction to Image Analysis 2026 event at Cardiff University, May 18-20, 2026.

Announcement for the RMS-hosted Introduction to Image Analysis 2026 event at Cardiff University, May 18-20, 2026.

*APPLY NOW* for Introduction to Image Analysis 2026! πŸ˜ƒπŸ”¬

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

22.12.2025 14:20 πŸ‘ 7 πŸ” 4 πŸ’¬ 0 πŸ“Œ 0
NFDI4BIOIMAGE from A to Z: R as in REMBI.
Recommended Metadata for Biological Images (REMBI) provides guidelines for metadata for biological images to enable the FAIR sharing of scientific data. REMBI is the result of the bioimaging community coming together to develop a metadata checklist to describe the imaging data itself, together with supporting metadata such as those describing the biological study and sample. It will also help enable automated data harvesting leveraging machine accessibility. 
Source: https://www.ebi.ac.uk/bioimage-archive/rembi-help-overview/

NFDI4BIOIMAGE from A to Z: R as in REMBI. Recommended Metadata for Biological Images (REMBI) provides guidelines for metadata for biological images to enable the FAIR sharing of scientific data. REMBI is the result of the bioimaging community coming together to develop a metadata checklist to describe the imaging data itself, together with supporting metadata such as those describing the biological study and sample. It will also help enable automated data harvesting leveraging machine accessibility. Source: https://www.ebi.ac.uk/bioimage-archive/rembi-help-overview/

#NFDI4BIOIMAGEfromAtoZ - R as in REMBI.
REMBI was developed by the light, electron, and X-ray microscopy communities to increase the likelihood that image data will be reused by their own reserachers, but also by other users of archived image material.
Read more:
πŸ‘‰ www.nature.com/articles/s41...

20.12.2025 15:01 πŸ‘ 9 πŸ” 3 πŸ’¬ 0 πŸ“Œ 0
Using Appose with Pixi and Napari for reproducible deep learning segmentation workflows.
Using Appose with Pixi and Napari for reproducible deep learning segmentation workflows. YouTube video by Brian Northan

New video: more examples showing deep learning segmentation failure modesβ€”and how to detect them with Napari. I show how Napari’s layer system compares images, ground truth, and results, and how Appose enables comparison across incompatible DL packages. www.youtube.com/watch?v=c369...

19.12.2025 13:43 πŸ‘ 19 πŸ” 11 πŸ’¬ 0 πŸ“Œ 0

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...

18.12.2025 11:00 πŸ‘ 11 πŸ” 7 πŸ’¬ 0 πŸ“Œ 0

The Francis Crick Institute Library & Information Services team has landed on bluesky!

Follow us to see what's going on πŸ˜€πŸ“šπŸ”¬

08.12.2025 09:55 πŸ‘ 7 πŸ” 1 πŸ’¬ 1 πŸ“Œ 1