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2024 Neuropixels course

A free online course on Neuropixels, 14-16 October 2024

A 4-shank Neuropixels 2.0 probe

听probes are transforming neurophysiology, and are now adopted by hundreds of laboratories worldwide.听This free online course trains听scientists to use these听probes in their experiments, and to process their output. The course is supported by the . Lectures from past years appear in our .听听

The听course is divided in two.听Days 1-2 (14-15 October 2024) have many short talks that cover the basics听to start working with Neuropixels probes, with lots of pointers to further resources and recent updates. People who are already expert users, or who took previous courses, may want to skip these days. Day 3 (16 October 2024), instead, does a deep dive into hot topics:听developments of the Neuropixels probe; Neuropixels recordings across species; and the output of the International Brain Laboratory (IBL). 听听

To register, . Registration is free, but it must be completed by October 7.听

Organizers

  • (UCL)
  • (UCL)

Advisory Board

  • (UCL)
  • 听(鲍奥)

Before the course

Install all software! Registered students will receive instructions for installing the听IBL pipeline, IBLsort, phy, bombcell, UnitMatch, and more.

Day 1 - Introduction to Neuropixels - Part 1

2-6 pm UK time

  • 1.1. Introduction: the past and future of听Neuropixels听-听听(UCL)听
  • 1.2.听Planning your Neuropixels trajectory - Dan Birman (UW and IBL)
  • 1.3. Recording hardware听- Flora Takacs (UCL)
  • 1.4.1听Recording software: SpikeGLX听听- Bill Karsh (HHMI and JHU)听
  • 1.4.2 Recording software: OpenEphys听- 听(Allen Institute)
  • 1.5.1 Recording techniques: acute recordings听- Karolina Socha (UCLA and IBL)
  • 1.5.2 Recording techniques: chronic recordings听-听听(UCL)
  • 1.6 Inspecting raw data听- Olivier Winter (IBL)
  • 1.7.1听Spike sorting with SpikeInterface听- (Allen Institute)
  • 1.7.2听Spike sorting with IBLSort听听- Olivier Winter (IBL)
  • 1.8.1听Practical: plan a trajectory听- Dan Birman (UW and IBL)
  • 1.8.2 Practical: spike-sort raw data听- Gaelle Chapuis and Olivier Winter (IBL)
  • 1.8.3 Practical: inspect sorting results with viewEphys听- Gaelle Chapuis and Olivier Winter (IBL)

Day 2 - Introduction to Neuropixels - Part 2

2-6 pm UK time

  • 2.1 Review of practicals from Day 1
  • 2.2.1 Quality control with Phy and Bombcell - Julie Fabre (UCL)
  • 2.2.2 Quality control with IBL metrics -听Christopher Langfield (IBL)
  • 2.3.1 Aligning spikes to brains with BrainGlobe -听Adam Tyson (UCL)
  • 2.3.2 Aligning spikes to brains with the IBL GUI -听Mayo Faulkner (IBL)听
  • 2.4.1听Tracking neurons across chronic recordings with UnitMatch - (UCL)听
  • 2.4.2 IBL visualization - Matt Whiteway (Columbia University and IBL)
  • 2.5.1 Practical: Quality control with Bombcell and IBL metrics听- Julie Fabre (UCL)
  • 2.5.2 Practical: Align data to histology听- Mayo Faulkner (IBL)
  • 2.5.3 Practical: Analyze neural activity on the IBL website听- Matt Whiteway (IBL)
  • 2.5.4 Practical: Match neurons across days with UnitMatch听- (UCL)听

Day 3 - News of the Neuropixels world

2-5:30 pm UK time

  • 3.1 Review of practicals from Day 2
  • 3.2 Neuropixels Technology: an outlook - Carolina Mora Lopez (IMEC)
  • 3.3.1 Neuropixels across species: NHPs -听Eric Trautmann (Columbia)
  • 3.3.2 Neuropixels across species: bats -听Kevin Kaiwen Qi (UC Berkeley)
  • 3.3.3 Neuropixels across species: octopus and squid -听Kostas Tsaridis (OIST)
  • 3.4.1 The IBL brainwide map: accessing the data - Miles Wells, Gaelle Chapuis, Mayo Faulkner (IBL)
  • 3.4.2 The IBL brainwide map: interpreting the data - Yanliang Shi, Marsa Taheri, Fenyin Zang (IBL)