Computational Cognitive Neuroscience textbook

• UpdatedSep 23, 2024
• TeX

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

• UpdatedFeb 25, 2025
• Python

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

• UpdatedNov 12, 2024
• Python

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

• UpdatedMar 17, 2025
• Python

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

• UpdatedSep 21, 2024
• Jupyter Notebook

AICONSlab's hippocampal segmentation algorithm using CNNs

• UpdatedOct 10, 2024
• Python

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

• UpdatedMar 12, 2025
• Go

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.

• UpdatedAug 31, 2020
• Jupyter Notebook

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.

• UpdatedAug 8, 2020
• Jupyter Notebook

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.

• UpdatedNov 17, 2024
• Python

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

• UpdatedJul 18, 2020
• Jupyter Notebook

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

• UpdatedJul 31, 2019
• Python

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

• UpdatedFeb 7, 2019
• Jupyter Notebook

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

• UpdatedJan 2, 2025
• MATLAB

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

• UpdatedJul 20, 2020
• Python

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

• UpdatedDec 5, 2024
• Jupyter Notebook

The LCN-HippoModel is a biophysically realistic model of CA1 pyramidal cells aimed to get novel insights on firing dynamics in deep and superficial populations during the theta rhythm.

• UpdatedJul 25, 2022
• Python

Python script & library to read hippocampal volumes computed by Freesurfer & ASHS

• UpdatedJul 2, 2023
• Python

A semi-latent state-space model that combines movement, LFP, and ensemble spiking information to identify periods of replay and decode its content in real time. Long Tao et al., unpublished.

• UpdatedOct 29, 2022
• Python

Code for my paper: "Theta sequences as eligibility traces: a biological solution to credit assignment"

• UpdatedApr 20, 2023
• Jupyter Notebook