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#kilosort

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Carsen Stringer (she/her)<p>Spike sorting with <a href="https://neuromatch.social/tags/Kilosort" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Kilosort</span></a> in <a href="https://neuromatch.social/tags/python" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>python</span></a> w/ <a href="https://neuromatch.social/tags/pytorch" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>pytorch</span></a> + <span class="h-card" translate="no"><a href="https://fosstodon.org/@pyqtgraph" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>pyqtgraph</span></a></span> !<br>&gt;&gt;&gt; pip install kilosort[gui]</p><p>To learn more, check out the paper (<a href="https://www.nature.com/articles/s41592-024-02232-7" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://www.</span><span class="ellipsis">nature.com/articles/s41592-024</span><span class="invisible">-02232-7</span></a>), the docs (<a href="https://kilosort.readthedocs.io/en/latest/" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">kilosort.readthedocs.io/en/lat</span><span class="invisible">est/</span></a> by Jacob Pennington), or watch the talk (<a href="https://youtube.com/watch?v=LTSmoACr918" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">youtube.com/watch?v=LTSmoACr91</span><span class="invisible">8</span></a> by <span class="h-card" translate="no"><a href="https://neuromatch.social/@marius10p" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>marius10p</span></a></span> )<br><a href="https://neuromatch.social/tags/neuroscience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>neuroscience</span></a></p>
Claudio Basile<p>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. <a href="https://fosstodon.org/tags/spikeinterface" class="mention hashtag" rel="tag">#<span>spikeinterface</span></a> <a href="https://fosstodon.org/tags/kilosort" class="mention hashtag" rel="tag">#<span>kilosort</span></a> <a href="https://fosstodon.org/tags/spikesorting" class="mention hashtag" rel="tag">#<span>spikesorting</span></a> <a href="https://fosstodon.org/tags/mountainsort" class="mention hashtag" rel="tag">#<span>mountainsort</span></a> <a href="https://fosstodon.org/tags/neuroscience" class="mention hashtag" rel="tag">#<span>neuroscience</span></a> <a href="https://fosstodon.org/tags/Python" class="mention hashtag" rel="tag">#<span>Python</span></a> <a href="https://fosstodon.org/tags/programming" class="mention hashtag" rel="tag">#<span>programming</span></a></p>
Alessio Buccino<p>Using simulated data with known ground truth spike times, we used <a href="https://qoto.org/tags/Kilosort" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Kilosort</span></a> 2.5 to evaluate spike sorting performance. WavPack Hybrid does not affect spike sorting accuracy, even at maximum compression levels (~14% file size).</p><p>(6/n)</p>
El Duvelle<p>2/<br>Here are some interesting tables from it... <br>I wonder how well it works with <a href="https://neuromatch.social/tags/Tetrodes" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Tetrodes</span></a> and in the <a href="https://neuromatch.social/tags/Hippocampus" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Hippocampus</span></a> given the special shape of <a href="https://neuromatch.social/tags/ComplexSpikes" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ComplexSpikes</span></a> 🤔​</p><p>If you try it please let us know what you think!!</p><p><a href="https://neuromatch.social/tags/Kilosort" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Kilosort</span></a> <a href="https://neuromatch.social/tags/Electrophysiology" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Electrophysiology</span></a> <a href="https://neuromatch.social/tags/SpikeSorting" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>SpikeSorting</span></a> <br>2/</p>
El Duvelle<p>Looks like <a href="https://neuromatch.social/tags/Kilosort" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Kilosort</span></a> 4 is out!<br><a href="https://www.biorxiv.org/content/10.1101/2023.01.07.523036v1" rel="nofollow noopener" target="_blank"><span class="invisible">https://www.</span><span class="ellipsis">biorxiv.org/content/10.1101/20</span><span class="invisible">23.01.07.523036v1</span></a></p><p>If you're doing spike-sorting for your research... are you going to try it out?</p><p><a href="https://neuromatch.social/tags/Electrophysiology" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Electrophysiology</span></a> <a href="https://neuromatch.social/tags/SpikeSorting" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>SpikeSorting</span></a> <br>1/ some screenshots below</p>