@spikeinterface

SpikeInterface is an open-source Python framework for analysis of electrophysiology data and spike sorting. https://xitter.cf/t.co/FQKc5VIP3y

spikeinterface.readthedocs.io/en/latest/
Joined June 2022
  • Tweets57
  • Following23
  • Followers334
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📢📢📢 #neurotwitter #ephys #spikesorting SpikeInterface version 0.101.0 is released! You can update your current version with: >>> pip install -U spikeinterface It comes with many many bug fixes and new features. Check out the full release notes here: spikeinterface.readthedocs.i…
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The most important new feature is the SortingAnalyzer, a new object for postprocessing spike sorting results. Refer to this guide to update your pipeline from previous versions: spikeinterface.readthedocs.i…
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A new release of the SpikeInterface-GUI is also available, now supporting full manual curation! Check it out as a potential alternative of Phy! github.com/SpikeInterface/sp…

GitHub - SpikeInterface/spikeinterface-gui: GUI for spikeinterface objects

GUI for spikeinterface objects. Contribute to SpikeInterface/spikeinterface-gui development by creating an account on GitHub.

github.com
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Had a fantastic time at the @spikeinterface workshop hosted by @InfAtEd earlier this week! Tons of useful info about state-of-the-art methods in the arcane art of spike sorting ⚡️ Here's @buccino_alessio from @AllenInstitute hammering home the most sobering point of the week...
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#neurotwitter #ephystwitter #spikesorting 📢📢📢 SpikeInterface v0.100.1 has just been released on #PyPi pypi.org/project/spikeinterf… A few bug fixes and support for Kilosort4, also via docker! Release notes here: spikeinterface.readthedocs.i… Happy spike sorting!

spikeinterface

Python toolkit for analysis, visualization, and comparison of spike sorting output

pypi.org
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You can upgrade to the new version with: >>> pip install -U spikeinterface And run Kilosort4 "as usual":
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📢📢📢 #ephys and #spikesorting community! We are thrilled to announce the "Tools and Methods for Next Generation Electrophysiology" event, happening in Edinburgh from May 27-31. Registration link: forms.gle/6dEdeR7sD7u6u8rU8 More info on the event: shorturl.at/oqU48
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Happening tomorrow - don't miss out... 🧠⬇️
Cambridge NeuroTech@CambNeuroTech1 Nov 2023
Join us and @buccino_alessio @spikeinterface @AllenInstitute on Nov 7th if you want learn about spike sorting from the experts with a follow-along tutorial covering best-practices for using the expansive SpikeInterface framework. Grab your spot here: eu1.hubs.ly/H0613yy0
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#neurotwitter #ephystwitter #spikesorting 📢📢📢📢📢 SpikeInterface v0.99.0 has been released on #PyPi! pypi.org/project/spikeinterf… Just run this to upgrade your installation: >>> pip install --upgrade spikeinterface Check out the release notes here: spikeinterface.readthedocs.i…

spikeinterface

Python toolkit for analysis, visualization, and comparison of spike sorting output

pypi.org
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Join us and @buccino_alessio @spikeinterface @AllenInstitute on Nov 7th if you want learn about spike sorting from the experts with a follow-along tutorial covering best-practices for using the expansive SpikeInterface framework. Grab your spot here: eu1.hubs.ly/H0613yy0
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It's been a great pleasure to present @spikeinterface and recent updates in #ephys analysis at #ODIN23 at @mitbrainandcog! Lots of amazing neurotech and tools for data processing, modeling, and sharing to bring neuroscience to the next level! Thanks @neurovium for the invitation!
Nima Dehghani
@neurovium11 Oct 2023
Alessio Buccino (Allen Institute for Neural Dynamics) SpikeInterface & SpikeForest: Spike sorting in large-scale recordings @buccino_alessio #ODIN2023 @mcgovernmit @mitbrainandcog
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Now accepted in @IOPPublishing Journal of #Neural #Engineering ! Check out the accepted version here: iopscience.iop.org/article/1…

Compression strategies for large-scale electrophysiology data

Compression strategies for large-scale electrophysiology data, Buccino, Alessio P, Winter, Olivier, Bryant, David, Feng, David, Svoboda, Karel, Siegle, Joshua H

iopscience.iop.org
Alessio Buccino@buccino_alessio5 Jun 2023
Do you use #neuropixels or #highdensity probes? Are your recordings filling up your hard drives? We got you covered! In the first preprint from @AllenInstitute for Neural Dynamics, we looked at ways to reduce the footprint of #ephys data. biorxiv.org/content/10.1101/… (1/n)
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SpikeInterface retweeted
PythoNeuro@pythoneuro14 Aug 2023
Replying to @spikeinterface
@spikeinterface is a #Python module that enables you to preprocess extracellular recordings, run and compare *several* spike sorters, and visualize the results. Also have awesome documentation! #OpenScience #neuroscience @MatthiasHennig6 @buccino_alessio @cole_hurwitz
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Neuropixels 2.0 probes are now on sale! Multi-shank, miniaturized, higher density than 1.0. To order: neuropixels.org/post/neuropi… Our paper about the probes: science.org/doi/full/10.1126…
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#neurotwitter #ephystwitter #spikesorting SpikeInterface v0.98.0 has been released on #PyPi: pypi.org/project/spikeinterf… Just run: >>> pip install --upgrade spikeinterface

spikeinterface

Python toolkit for analysis, visualization, and comparison of spike sorting output

pypi.org
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This release includes several bug fixes and new features! Check out the main changes here: spikeinterface.readthedocs.i…
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A very exciting new feature is the motion correction framework to compensate for drifts! Check out this tutorial for more info: spikeinterface.readthedocs.i…
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With the use of #Neuropixels probes (or similar) for 𝑖𝑛 𝑣𝑖𝑣𝑜 recordings, it is very common to observe probe "drifts", which strongly degrade spike sorting accuracy. In our recent paper, we looked at several drift correction methods and evaluated their performance! (1/10)
bioRxiv Neuroscience@biorxiv_neursci30 Jun 2023
A modular approach to handle in-vivo drift correction for high-density extracellular recordings biorxiv.org/cgi/content/shor… #biorxiv_neursci
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Do you use #neuropixels or #highdensity probes? Are your recordings filling up your hard drives? We got you covered! In the first preprint from @AllenInstitute for Neural Dynamics, we looked at ways to reduce the footprint of #ephys data. biorxiv.org/content/10.1101/… (1/n)
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The electrophysiology field absolutely needs a consensus on post spike-sorting unit quality metrics definition, transparent documentation, and implementation. We have started with this: spikeinterface.readthedocs.i… Feedback is very welcome! #spikesorting #ephys #neurotwitter
Anne Churchland@anne_churchland18 May 2023
Question for folks who read in vivo ephys papers: what quality control standards would benefit the field? Do you worry about unit isolation, stability/drift, epileptiform activity, noise levels? Large scale recordings are now common but not sure we have agreed on standards.
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