Computational Cognitive Neuroscience textbook

A python package for simulating movement and spatial cell types (e.g. place cells, grid cells) in continuous environments.

Synapse — Temporal knowledge graph memory for AI agents. Self-hosted FalkorDB + Graphiti with hippocampus-layer memory management.

3D-UCaps: 3D Capsules Unet for Volumetric Image Segmentation (MICCAI 2021)

BIDS App for Hippunfold (automated hippocampal unfolding and subfield segmentation)

State space models for decoding hippocampal trajectories and determining their type using sorted or clusterless data

Axon is a spiking, biologically-based neural model driven by predictive error-driven learning, for systems-level models of the brain

AICONSlab's hippocampal segmentation algorithm using CNNs

Hippocampal Segmentation Factory (HSF). A one-liner Deep Learning tool to segment raw T2w (and T1w) MRIs into hippocampal subfields in few seconds. Trained on 700+ manually segmented hippocampi.

In this project I develop a deep learning CNN model to predict Alzheimer's disease using 3D MRI medical images of the Hippocampus region of the brain.

Built an end-to-end AI system which features a deep learning algorithm that integrates into a clinical-grade viewer and automatically measures hippocampal volumes of new patients, as their studies are committed to the clinical imaging archive.

A complete introduction to Computational Cognitive Neuroscience, where computer models of the brain are used to understand a wide range of cognitive functions, including perception, attention, learning, memory, motor control, executive function, and language

Application of AI in 3D Medical Imaging in quantifying Alzheimer's disease progression through automated measurement of hippocampal volume

Deep spectral-based shape features for Alzheimer’s Disease classification

CRASHS: Cortical Reconstruction for Automatic Segmentation of Hippocampal Subfields (ASHS)

[MICCAI 2026] CALHippo: A reproducible pipeline for cell-type-resolved instance segmentation and density-based mesoscale reconstruction of the human hippocampus.

Graphnosis — the dual-graph engram your AI never had

Partial analyses to accompany "Uncovering temporal structure in hippocampal output patterns".

Custom code (Python or Matlab) to compute centripetal propagation from astrocytic calcium recordings using pixel-wise correlation functions

State space models for categorization of replay content from multiunit spiking activity. Deng et al. 2016