iiinova — where your digital self keeps evolving

Clarence Mah @clarencemah.me · 27/08/2026

I'm experimenting with reactive notebooks for spatial omics. Introducing the LandmarksWidget: draw regions on tissue and bring points straight back into your Python analysis, no tool‑hopping. Built on anywidget + marimo. What are your #spatialomics analysis pain points?

github.com

GitHub - ckmah/spatial-rx: Reactive spatial landmarks for matplotlib and marimo

Reactive spatial landmarks for matplotlib and marimo - ckmah/spatial-rx

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Clarence Mah @clarencemah.me · 12/08/2026

Come check out cool demos with @marimo.io (reactive Python notebooks!) I’ll be doing a small demo at the next community call aug 25 on spatial omics. deets: luma.com/13c69h7x I'm also a new marimo ambassador! do reach out for event collabs in San Diego or Boston👋

luma.com

marimo Community Call! · Luma

Hear directly from the developers of marimo at our Q3 community call! We'll share out some exciting new updates (hint: marimoHub 👀), as well as introduce you…

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Clarence Mah @clarencemah.me · 22/02/2026

It's been a minute but I found my way back to a conference; I'll be at AGBT this week representing @stellaromics.bsky.social to lend my experience communicating all things #spatialbio #bioinformatics #techbio #ai ! Looking forward to meeting new folks, please reach out if interested! 🧬🔬

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Clarence Mah @clarencemah.me · 20/01/2025

Glad to be part of such an open and collaborative community pushing #SpatialBio forward! Thanks for inviting and hosting us @kevinyamauchi.bsky.social @lucamarconato.bsky.social & Giovanni Palla 🙏 I focused on the intro notebook and improving usability for first time users ⚒️ check it out! ->

spatialdata.scverse.org

Intro to SpatialData — spatialdata

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scverse @scverse.bsky.social · 19/12/2024

Closing 2024, scverse celebrates growth and collaboration! Huge thanks to everyone on this journey and our core team & board (@fabiantheis.bsky.social, @francescafinotello.bsky.social, @steglelab.bsky.social, Nir Yosef, @panosroussos.bsky.social, @robp.bsky.social). Here's to an inspiring 2025!

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Clarence Mah @clarencemah.me · 18/12/2024

Oof, software releases are always so nerve racking 😅 just updated bento-tools.readthedocs.io to v2.1.4 🥳 We now support 1-to-many spatial indexing for mapping cells to multiple organelles/subcellular domains, enabling the modeling of complex spatial relationships! #spatialbiology 🧪🧬🖥️

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Clarence Mah @clarencemah.me · 11/12/2024

This looks amazing! Really appreciate the focus on documentation and usability.

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Clarence Mah @clarencemah.me · 07/12/2024

that's a lot of git commits

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Clarence Mah @clarencemah.me · 01/12/2024

I'm not in NLP or javascript, but found compromise.cool is a very cool example of "less is more" ❤️ #opensource

compromise.cool

Compromise

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Kat Toropova @kattoropova.bsky.social · 24/11/2024

Sign of the times, no more bluebird on the biorxiv engagement tab..

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Clarence Mah @clarencemah.me · 21/11/2024

Hey science folks 🧪! Trying to stay on top of #SpatialBiology convos, tech, studies, conferences, etc.? Well here's a feed for you! bsky.app/profile/did:...

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Clarence Mah @clarencemah.me · 15/11/2024

oof, this was probably inevitable with the status quo. but also eLife's impact factor would simply drop over time to reflect the "lower quality" if it really is the case. seems like a hasty decision by Clarivate. 🧪 www.science.org/content/arti...

science.org

Open-access journal elife will lose its ‘impact factor’ over controversial publishing model

Web of Science index decides to strip key metric because elife’s unusual peer review doesn’t meet its criteria

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Will Macnair @willmacnair.bsky.social · 15/11/2024

Restarting a previous discussion on here: How convinced are #SingleCell people by cell-cell communication methods? I'm still at "not very" 😅 I see them used everywhere, but I don't know of any really good way to validate them... More importantly, I don't know of any *non-simulated* training data.

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Andy Hickl @andyhickl.bsky.social · 15/11/2024

This is hard to hear. A lot more cuts to Federal science funding are likely in the offing. We need to find new/better/more ways to drive interdisciplinary collaboration and cooperation in science 🧪

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Clarence Mah @clarencemah.me · 14/11/2024

Now that more of the spatial community is here, I've put together a feed for #SpatialBiology! Check it out here: bsky.app/profile/did:... Also, if you think it's missing posts, msg me the post and I'll see how I can improve things 🧪🖥️🧬

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Michelle Franc Ragsac, PhD 🇵🇭🇺🇸 @mragsac.com · 12/11/2024

Safety of these individuals is also a concern of mine, as I’ve mentioned on another thread 🥲 But as we expand our own networks with new voices, hopefully we can brainstorm together how to protect everyone from harm 🧠 These online spaces are communities, and we gotta look out for one another 💕

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Clarence Mah @clarencemah.me · 11/11/2024

So.. according to this umap, what cell type are you? 🧬🖥️

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Clarence Mah @clarencemah.me · 11/11/2024

Agreed, reminder to myself to be mindful of inclusivity, biases and echo chambers when curating my own feed. 💡Related; I'm putting together a #spatialbiology starter pack, please let me know if you would like to be included!

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Clarence Mah @clarencemah.me · 11/11/2024

Feeling blessed to be able to travel for science 😊 Shout-out to #scverse for hosting the SpatialData Workshop in Basel this week!

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🧬Jacob L Steenwyk @jlsteenwyk.bsky.social · 10/11/2024

Genomics, evolution, and more starter pack! Help build community with this starter pack. This list is currently incomplete. Want to be included? Reply and I will remedy that! go.bsky.app/JjvzkWU

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Michelle Franc Ragsac, PhD 🇵🇭🇺🇸 @mragsac.com · 10/11/2024

Another helpful resource for people to check out is @clearsky.app by @thieflord.dev: clearsky.app 🌐✨ You can use the site to look up who’s blocking a user 🛑, who that user is blocking 🙅🏽‍♀️, any lists the user is a part of 👥, and their message history (if authorized) 🦋!

clearsky.app

ClearSky

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Clarence Mah @clarencemah.me · 10/11/2024

Great list of curated individuals in the space! Though I recommend checking out who exactly is included 🧐 you can either "follow all" or follow accounts individually

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Clarence Mah @clarencemah.me · 10/11/2024

Thanks for all the recent follows, I'm happy to see many familiar faces 😊 I'd like to briefly introduce myself here. I am a #bioinformatics scientist in #SanDiego building methods for #spatialbiology. I love building open source tools for the community and am excited to meet all of you!

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