HAL

Hybrid Automata Library is a Java library for hybrid agent-based reaction diffusion modeling both on & off lattice in 2 & 3D developed by the #AndersonLab

[HAL @HybridAutomata]

It’s been a long time coming but HAL is finally published in @PLOSCompBiol check out our software paper https://t.co/BdUzIUJJxd and our website https://t.co/5fHNBbJ0og for more details on how to get started with our quick prototyping agent based platform! #AndersonLab

[Sadegh Marzban @S_Marzban]

Exciting News! Lenia-in-HAL! 🚨

We released Lenia in the Hybrid Automata Library (@HybridAutomata) and everyone can implement Lenia using this link

https://t.co/6c9JjmsyaA

[Jeffrey West @mathoncbro]

It's so cool to use @HybridAutomata to run the same simulation, but color-code and visualize many different ways:

[Jeffrey West @mathoncbro]

Immune escape is a logical setting to implement an investigation into collective/group phenotypes (e.g. metaphenotypes, if you will)

Tumor-immune interactions are by a definition, a collective phenomenon by requiring the presence of two cell types interacting in close proximity: tumor and immune.

[Jeffrey West @mathoncbro]

A thread on our #metaphenotypes paper:

https://t.co/66z12ci0Ar

🧵🧵🧵

[Jeffrey West @mathoncbro]

"Spatial interactions modulate tumor growth and immune infiltration"

Our latest preprint:
@S_Marzban in collab w/ @AmelioLab!

We apply methods from artificial life, @BertChakovsky's #Lenia, as a model of tumor-immune:
- spatial growth dynamics
- cell-cell competition &
- cell migration

Application to head & neck squamous cell carcinomas to elucidate the role of collagen on immune infiltration

https://t.co/Uzg9lhp9rn

[Sandy Anderson @ara_anderson]

Super chuffed to see @mathoncbro artwork generated with @HybridAutomata on the cover of @TrendsCellBio for our recent article with @markrt_ on how, Agent-based methods facilitate integrative science in cancer. https://t.co/DgxWGEyU07

[Jeffrey West @mathoncbro]

Re-sharing this old blog post on combining @HybridAutomata with #EvoFreq:

https://t.co/wiTQfl968p

even though i wrote it, i still refer to it myself when building models 😅

[Sandy Anderson @ara_anderson]

This is so cool, our theoretical work led by @mathoncbro with @markrt_ using @HybridAutomata comes to similar conclusions but we use a buffer agent to modulate acidity and our model is of a more generic ductal tumour: https://t.co/rGHcyhL7zB

[Sandy Anderson @ara_anderson]

Moffitt Researchers Use Computer Modeling to Understand How Self-Renewal Processes Impact Skin Cell Evolution #AndersonLab @mathonco @MoffittNews https://t.co/vnU3Dr5KYb

[Sandy Anderson @ara_anderson]

Please to announce our latest paper led by @research_junkie just out in @PNASNews on how, Homeostasis limits keratinocyte evolution. #AndersonLab Many years in the making with help from Eunjung Kim, Rafael Bravo, @mathoncbro @leedham_simon & Darryl Shibata https://t.co/QdexxWOR4L

[Ryan O Schenck @research_junkie]

I’m excited to share our recently published manuscript in PNAS on clonal dynamics in the homeostatic epidermis. This paper took a winding course and was the first project that was incorporated into my DPhil. 1/🧵

[HAL @HybridAutomata]

Check out the landing page for @CommsMedicine https://t.co/OQpTAVnFB7 highlighting @StroblMAR latest paper https://t.co/VdUkqgfNBL we see a gorgeous multi panel set of simulations using @HybridAutomata

[Jeffrey West @mathoncbro]

Another neat example of modeling using @HybridAutomata , this time in SARS-CoV-2 applications:

https://t.co/hwuMXatdhB

nice work @gergely_rost & @S_Marzban et al 💯

[Sandy Anderson @ara_anderson]

Pleased to share a new collaboration with @cmaley on @EvolTherapy led by Daniel Thomas: In Silico Investigations of Multi-Drug Adaptive Therapy Protocols https://t.co/yPJ3B2Lf3r Another great application of @HybridAutomata!

[Jeffrey West @mathoncbro]

My latest weekend project: implementing @BertChakovsky's Lenia project in @HybridAutomata.

It's an elegant and mathematically beautiful method to extend discrete cellular automata (e.g. Game of Life) to allow continuous states.

🧵 incoming thread of cool automata gifs:

[HAL @HybridAutomata]

The code and data for the model and for all analyses presented in this paper is publicly available at https://t.co/gEXPxFGIiS

[HAL @HybridAutomata]

Check out the landing page for @CommsMedicine https://t.co/OQpTAVnFB7 highlighting @StroblMAR latest paper https://t.co/VdUkqgfNBL we see a gorgeous multi panel set of simulations using @HybridAutomata

[HAL @HybridAutomata]

#HAL showcased on Hungarian national tv! Thanks @gergely_rost for using our hybrid automata platform!

[Gergely Röst @gergely_rost]

I had to get up very early to talk about our hybrid agent based - partial differential equation model for viral dynamics (https://t.co/hhM5lEOIZl) in the morning news of Hungarian national televison: https://t.co/HWae1FVVkx

[Sandy Anderson @ara_anderson]

Pleased to announce the release of #AndersonLab latest tool: GATTACA, for base pair resolution mutation tracking in agent-based models like @HybridAutomata. Developed by @research_junkie for our somatic evolution studies. Here’s a cool gif! https://t.co/lLZntrg5fY

[Jeffrey West @mathoncbro]

Learned something new from @normonics' talk at #RWRI today -- Turing patterns can form in an *extremely simple* discrete cell automata:

Here's my code using Young's model (1984) created in @HybridAutomata):
https://t.co/eQqn0o61cM

(the C.A. rules are in the next tweet)