BIDS App for Hippunfold (automated hippocampal unfolding and subfield segmentation)
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Updated
Jul 10, 2024 - Python
BIDS App for Hippunfold (automated hippocampal unfolding and subfield segmentation)
An open-source package that offer fully-functional spike-based bio-inspired hippocampal memory models implemented with SNN technology in the SpiNNaker hardware in Python
Current code for my hippocampal morphometry workflow, based on the hippodeep_pytorch segmentation program and the SlicerSALT shape analysis software.
The old, outdated code for my hippocampal morphometry pipeline.
A python package for modelling locomotion in complex environments and spatially/velocity selective cell activity.
3D-UCaps: 3D Capsules Unet for Volumetric Image Segmentation (MICCAI 2021)
This repository contains all the files and related directions to implement in MATLAB environment the episodic memory model developed by Pirazzini and Ursino in “Modeling the contribution of theta-gamma coupling to sequential memory, imagination, and dreaming, Frontiers in Neural Circuits, 2024” (DOI: https://doi.org/10.3389/fncir.2024.1326609)
Custom code (Python or Matlab) to compute centripetal propagation from astrocytic calcium recordings using pixel-wise correlation functions
Full-scale biophysical model of the dentate gyrus
Full-scale biophysical model of the dentate gyrus
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.
This work showcases a variational graph autoencoder disentanglement using 3D mesh data.
Computational Cognitive Neuroscience, Fourth Edition
ScanHippoHealth: MRI segmentation using 3D-Unet on Medical Segmentation Decathlon data. Flask app with secure authentication, predicting and displaying six slices of input MRI alongside masks for precise hippocampus segmentation. Contributions welcome to enhance medical image analysis for better diagnostics.
State space models for decoding hippocampal trajectories and determining their type using sorted or clusterless data
Python code to analyze data and create figures for the manuscript "Graded Remapping of Hippocampal Ensembles under Sensory Conflicts"
Python script & library to read hippocampal volumes computed by Freesurfer & ASHS
Code for my paper: "Theta sequences as eligibility traces: a biological solution to credit assignment"
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