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Alessio Buccino

Hi everyone!

I am an engineer and software developer focused on methods and analysis tools for neuroscience research, especially for extracellular electrophysiology. I am passionate about science, software, and engineering, and my mission is to support neuroscientists and facilitate their research efforts by providing state-of-the-art analysis methods and software tools. Among these, I am the core developer of several open-source scientific tools, including SpikeInterface, a widely used software framework to unify and simplify the analysis of extracellular electrophysiology data.

In March 2022, I joined the Allen Institute for Neural Dynamics team as an electrophysiology pipeline development engineer consultant, with the goal of building open-source and computationally efficient processing pipelines to analyze large amounts of electrophysiological data. Since July 2020, I have been working part-time at CatalystNeuro, a consulting company with the mission of facilitating collaborations in neuroscience and standardizing data analysis and data storage solutions.

Previously, I was a Postdoctoral Fellow at the Bio Engineering Lab at ETH, working on multimodal approaches to probe neural activity and to construct detailed biophysical models. Before that I was at the Center for Integrated Neuroplasticity CINPLA, at the University of Oslo, where I received my PhD.

Twitter Mastodon

Software and Projects

  • SpikeInterface: unified and open-source Python framework for spike sorting. Features include loading/saving in several file format, pre-, post-processing, running 10+ different spike sorters, validation (quality metrics - QC), export to Phy, automatic curation based on QC, comparison between sorting outputs, and visualization widgets.

  • ProbeInterface: unified and open-source Python framework for handling neural probes.

  • MEArec: Python-based simulator of extracellular spiking activity for spike sorting development and validation. Features include: replication of bursting, control of spatio-temporal collisions, slow and fast drifts, several noise models. Fully interfaced with SpikeInterface.

Other resources

Alessio Buccino's Projects

alejoe91.github.io icon alejoe91.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

axon_velocity icon axon_velocity

Python package to reconstruct axonal branches from high-density micro-electrode arrays

bisc_sim icon bisc_sim

Bioelectronic Interfacing to Sensory Cortex simulation code

bluepyefe icon bluepyefe

BluePyEfe: Blue Brain Python E-feature extraction

dredge icon dredge

Robust online multiband drift estimation in electrophysiology data

eegnirs-gui icon eegnirs-gui

Matlab GUI to visualize and analyze EEG and fNIRS data from microEEG and NIRx

elephant icon elephant

Elephant is the Electrophysiology Analysis Toolkit

erss icon erss

A tool for creating biophysically realistic extracellular recording sites given a specific probe geometry and brain region

exhale-companion icon exhale-companion

Dummy repo for testing the doxygen - breathe - readthedocs build process.

hs2 icon hs2

Software for high density electrophysiology

kachery-p2p icon kachery-p2p

Peer-to-peer content-addressable file sharing using kachery

kilosort icon kilosort

Fast spike sorting with drift correction for up to a thousand channels

klustakwik2 icon klustakwik2

Fast software for high-dimensional cluster analysis using the masked EM algorithm for Gaussians mixtures

lfpy icon lfpy

Python-module for calculation of extracellular potentials from multicompartment neuron models and networks

mearec icon mearec

Fast and customizable of extracellular recordings on MEA

meautility icon meautility

Python package for multi-electrode array handling and stimulation

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