Thrilled to share our latest work, Bio-Babel: a multi-agent framework for native cross-language software reconstruction. We reconstructed 17 visualization and classic single-cell analysis packages from R in Python, spanning foundational visualization tools such as grid/ggplot2 and widely used single-cell tools including Monocle 2/3, tradeSeq, NicheNet, and copykat. The reconstructed stack features native AnnData/scverse integration and agent-readable MCP contracts. Using this stack, an AI agent recovered pancreatic differentiation trajectories and helped reveal defects under graded SWI/SNF loss. Bio-Babel also extends beyond R to Python translation: its C++ reconstruction of UMI-tools reproduced identical barcode and UMI groupings with higher efficiency. Bio-Babel offers a path to preserve classic methods, bring them into modern ecosystems, and transform them into building blocks for agent-driven science. Paper: doi.org/10.64898/2026.08.30.… Website: biobabel.stanford.edu Code: github.com/Bio-Babel Work led by my incredible post-doc Nianping @nianping_liu , contribured by Xuanzhi Chen @ProtectedTrash (who is applying for PhD program, please keep an eye on his application), Miao Cui @miao_cui0330, Xiaoying Liao, Xiaoke Song, Sairam Pantham @spantham1 , and Weize Xu @Nanguage . If you want your package or any classic package to speak a different tongue, please let us know! More below:

Help us build the Virtual Embryo community: virtualembryo.ai/challenge, and get rewarded for your contributions! A great challenge should create more than a leaderboard. It should leave behind open tools, knowledge, and infrastructure that everyone can build upon. That’s why the Virtual Embryo Challenge launched $20,000 in Community Contribution Awards, with up to $200 awarded per contribution. And yes: you can make multiple contributions and receive multiple awards! You don’t need to win the competition. We want to recognize people who help make Virtual Embryo more accessible, useful, and reproducible. Community contributions can take MANY forms: 🧵👇

Incredible first week for the Virtual Embryo Challenge: virtualembryo.ai/challenge! 401 registered researchers 295 teams within only 4 days! We’re already seeing impressive progress on the leaderboard as teams push their models further. Thank you for the incredible enthusiasm, we’re excited to see what this community will build!

We are thrilled to announce the inaugural Stanford Virtual Embryo Challenge at NeurIPS 2026 @StanfordAILab @NeurIPSConf , in collaboration with Laude Institute @LaudeInstitute , UCSD, and Harvard! Join us in building AI models that predict how life takes shape, across space, scale, time, and perturbation: virtualembryo.ai/challenge. We welcome participants from academia and industry, independent researchers, and even AI agent scientists!!! Our vision is inspired by and complementary to the virtual-cell efforts championed by @arcinstitute . But life is more than a collection of individual cells. Why Virtual Embryos? See below 🧵👇

Introducing Pantheon Fleet, building on PantheonOS, a distributed, open-source drop-in for Claude Science + GPT Rosalind. Claude Science @claudeai GPT Rosalind @OpenAI made AI research accessible. But your data, compute, and workflows still live on someone else's platform. Today we're launching Pantheon Fleet: one command to orchestrate every resource you own—laptop, HPC cluster, cloud GPUs, private infrastructure—privacy preserved by default. But there are more: Pantheon-Store: 2,300+ skills, agents, and scientific teams. Pantheon auto-picks the right ones for every task. Pantheon-Evolve: improves ML algorithms on its own—already beating human baselines on single-cell batch correction. Real discoveries: asymmetric gene-expression gradients in mouse embryos, congenital disease genes in the human heart. Full stack: Web, Desktop, CLI, Jupyter, Pantheon Claw. Your data. Your compute. Your models. Your science.