Is anyone in the neuroscience field using kilosort 3 through spike interface available to help me with some issues/questions? I am currently trying to set up a pipeline using SpikeInterface but am running through some issues. #spikeinterface #kilosort #spikesorting #mountainsort #neuroscience #Python #programming

Spike-sorting, before /after

This uses the automated method Klustakwick and then some manual refinement

#PlaceCells #SpikeSorting #Tetrodes #Neuroscience

#SpikeSorting : where would be the best place (or handle / hashtag) to ask questions about Phy? 🙏​
And if you use it, can you let me know, maybe we can help each other?
(This Phy: https://phy.readthedocs.io/en/latest/)

#NeuroMastodon #ephys #spikesorting

SpikeInterface v0.97.0 has been released on #PyPi: https://pypi.org/project/spikeinterface/

Just run:
>>> pip install --upgrade spikeinterface

The new release includes several new features and updates to the package! A detailed list of changes can be found here:
https://spikeinterface.readthedocs.io/en/latest/releases/0.97.0.html

Happy #spikesorting to everyone!!!

Hi, is anyone using #Mountainsort with #Neuralynx data? Are you using #Spikeinterface to convert the input data? Would you share your code? 😃​🙏​
#SpikeSorting

2/
Here are some interesting tables from it...
I wonder how well it works with #Tetrodes and in the #Hippocampus given the special shape of #ComplexSpikes 🤔​

If you try it please let us know what you think!!

#Kilosort #Electrophysiology #SpikeSorting
end/

Looks like #Kilosort 4 is out!
https://www.biorxiv.org/content/10.1101/2023.01.07.523036v1

If you're doing spike-sorting for your research... are you going to try it out?

#Electrophysiology #SpikeSorting
1/ some screenshots below

@chrisXrodgers
Very good question!
I have most recently used MountainSort + Phy (via SpikeInterface) and I quite like Phy (for manual refinement of clusters) but not so much Mountainsort - it seemed very conservative. I’ll go back to it soon and tweak the settings a bit. If you want to try it out we have some shared code with the Genzel lab here: https://github.com/elduvelle/SpikeinterfaceMS4_GenzelLab

But I was also going to try out Kilosort. Do you really not like it?
Before that KlustaKwik + Tint has been the gold standard for me :) … but maybe it’s time to move on!
#SpikeSorting #Tetrodes #Electrophysiology

#spikesorting #electrophysiology

Happy new year from the SpikeInterface team! 🥳
2023 will be full of updates and new exciting features!

If you'd like to support us and broaden the SI community, please add a ⭐️ to our GitHub page 🙏:
https://github.com/SpikeInterface/spikeinterface

#introduction

SpikeInterface is an #opensource framework in #python to analyze extracellular electrophysiology #ephys data and perform #spikesorting.

We believe that spike sorting development should be a collaborative and community effort and we encourage contributors!

You can read more in the docs:
https://spikeinterface.readthedocs.io/en/latest/

Follow a tutorial:
https://github.com/SpikeInterface/spiketutorials

Check out the source code:
https://github.com/SpikeInterface/spikeinterface/

Happy #spikesorting to all!

#introduction

SpikeInterface is an #opensource framework in #python to analyze extracellular electrophysiology #ephys data and perform #spikesorting.

We believe that spike sorting development should be a collaborative and community effort and we encourage contributors!

You can read more in the docs:
https://spikeinterface.readthedocs.io/en/latest/

Follow a tutorial:
https://github.com/SpikeInterface/spiketutorials

Check out the source code:
https://github.com/SpikeInterface/spikeinterface/

Happy #spikesorting to all!