Independent scientific publication
Field notes from the frontier of computational neuroscience, intelligent systems, and the software that makes discovery possible.
Vol. 04 / August 2026
Minisim is an open source Python simulation framework for generating synthetic one photon miniscope calcium imaging recordings from explicit biological, optical, motion, illumination, tissue, and sensor models. Instead of recovering neurons from an observed movie, Minisim runs the problem in the opposite direction. It places neurons, generates calcium activity, passes those signals through tissue and optics,
CASCADE Spike Inference is a deep-learning tool that converts calcium-imaging ΔF/F traces into estimated neuronal spike rates, spiking probabilities, or discrete spikes. It adapts to the recording’s frame rate and noise level, providing calibrated results across diverse experimental conditions with minimal manual parameter adjustment.
Whisper is an open source encoder-decoder Transformer architecture for automatic speech recognition, multilingual transcription, language identification, timestamp prediction, and speech translation. Its defining contribution is less a novel neural network block than a training strategy: a conventional sequence-to-sequence Transformer trained at extraordinary scale on diverse, and weakly supervised audio-text pairs.
Three fields. One conversation.
We follow ideas across disciplinary borders—because the most important discoveries rarely stay in their lane.
~ pip install thought-space
Resolving the architecture of an idea...
✓ Reproducible environment created
experiment/
├── data/ # versioned
├── models/ # tested
├── notebooks/ # narrated
└── README.md # human
~
Research software / Methods
Beyond the algorithms are choices about maintenance, reproducibility, community, and care. We document the craft that turns a promising notebook into a durable scientific tool.
“Understanding intelligence will take more than building larger models. It will take better questions, shared tools, and a willingness to look across scales.”
— The Arcady Oboukhov Review thesis