Skip to content

Commit caacd0c

Browse files
author
Quarto GHA Workflow Runner
committed
Built site for gh-pages
1 parent d29d786 commit caacd0c

5 files changed

Lines changed: 44 additions & 44 deletions

File tree

.nojekyll

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -1 +1 @@
1-
6780c860
1+
359301ee

research/index.html

Lines changed: 17 additions & 17 deletions
Original file line numberDiff line numberDiff line change
@@ -222,7 +222,7 @@ <h5 class="quarto-listing-category-title">Categories</h5><div class="quarto-list
222222

223223
<div class="quarto-listing quarto-listing-container-default" id="listing-listing">
224224
<div class="list quarto-listing-default">
225-
<div class="quarto-post image-right" data-index="0" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3IlMkNNYWNoaW5lJTIwbGVhcm5pbmc=" data-listing-date-sort="1769904000000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="378">
225+
<div class="quarto-post image-right" data-index="0" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3IlMkNNYWNoaW5lJTIwbGVhcm5pbmc=" data-listing-date-sort="1769904000000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="378">
226226
<div class="thumbnail"><a href="../research/posts/facevseye.html" class="no-external">
227227

228228
<img loading="lazy" src="../research/posts/images/syeda_cover.png" class="thumbnail-image" alt="neural activity in mouse visual cortex predicted by eye movements versus orofacial movements">
@@ -255,7 +255,7 @@ <h3 class="no-anchor listing-title">
255255
</a>
256256
</div>
257257
</div>
258-
<div class="quarto-post image-right" data-index="1" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3I=" data-listing-date-sort="1756684800000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="290">
258+
<div class="quarto-post image-right" data-index="1" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3I=" data-listing-date-sort="1756684800000" data-listing-file-modified-sort="1777291579551" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="290">
259259
<div class="thumbnail"><a href="../research/posts/spatialpred.html" class="no-external">
260260

261261
<img loading="lazy" src="../research/posts/images/zhang_cover.png" class="thumbnail-image" alt="predictive coding surprise response in visual cortex">
@@ -286,7 +286,7 @@ <h3 class="no-anchor listing-title">
286286
</a>
287287
</div>
288288
</div>
289-
<div class="quarto-post image-right" data-index="2" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDTWFjaGluZSUyMGxlYXJuaW5n" data-listing-date-sort="1751328000000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="547">
289+
<div class="quarto-post image-right" data-index="2" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDTWFjaGluZSUyMGxlYXJuaW5n" data-listing-date-sort="1751328000000" data-listing-file-modified-sort="1777291579551" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="547">
290290
<div class="thumbnail"><a href="../research/posts/minimodels.html" class="no-external">
291291

292292
<img loading="lazy" src="../research/posts/images/du_cover.jpg" class="thumbnail-image" alt="minimodels for single neurons in V1">
@@ -317,7 +317,7 @@ <h3 class="no-anchor listing-title">
317317
</a>
318318
</div>
319319
</div>
320-
<div class="quarto-post image-right" data-index="3" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3I=" data-listing-date-sort="1748736000000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="534">
320+
<div class="quarto-post image-right" data-index="3" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3I=" data-listing-date-sort="1748736000000" data-listing-file-modified-sort="1777291579551" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="534">
321321
<div class="thumbnail"><a href="../research/posts/unsupervised.html" class="no-external">
322322

323323
<img loading="lazy" src="../research/posts/images/zhong_cover.png" class="thumbnail-image" alt="unsupervised and supervised learning">
@@ -348,7 +348,7 @@ <h3 class="no-anchor listing-title">
348348
</a>
349349
</div>
350350
</div>
351-
<div class="quarto-post image-right" data-index="4" data-categories="U2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1739318400000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="198">
351+
<div class="quarto-post image-right" data-index="4" data-categories="U2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1739318400000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="198">
352352
<div class="thumbnail"><a href="../research/posts/cellpose3.html" class="no-external">
353353

354354
<img loading="lazy" src="../research/posts/images/cellpose3_cover.png" class="thumbnail-image" alt="image restoration of various cellular images">
@@ -379,7 +379,7 @@ <h3 class="no-anchor listing-title">
379379
</a>
380380
</div>
381381
</div>
382-
<div class="quarto-post image-right" data-index="5" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDTmV1cmFsJTIwbW9kZWxpbmc=" data-listing-date-sort="1736640000000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="679">
382+
<div class="quarto-post image-right" data-index="5" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDTmV1cmFsJTIwbW9kZWxpbmc=" data-listing-date-sort="1736640000000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="679">
383383
<div class="thumbnail"><a href="../research/posts/critical_init.html" class="no-external">
384384

385385
<img loading="lazy" src="../research/posts/images/ci_fig1.png" class="thumbnail-image" alt="schematic of neural recordings from mouse V1, whole-brain, and hippocampus; neural activity traces from the population, showing more correlated activity in V1 and whole-brain recordings versus more decorrelated activity in hippocampus">
@@ -408,7 +408,7 @@ <h3 class="no-anchor listing-title">
408408
</a>
409409
</div>
410410
</div>
411-
<div class="quarto-post image-right" data-index="6" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1727740800000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="323">
411+
<div class="quarto-post image-right" data-index="6" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1727740800000" data-listing-file-modified-sort="1777291579551" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="323">
412412
<div class="thumbnail"><a href="../research/posts/rastermap.html" class="no-external">
413413

414414
<img loading="lazy" src="../research/posts/images/rm_fig3.jpg" class="thumbnail-image" alt="rastermap visualization of neural activity during a virtual reality task">
@@ -439,7 +439,7 @@ <h3 class="no-anchor listing-title">
439439
</a>
440440
</div>
441441
</div>
442-
<div class="quarto-post image-right" data-index="7" data-categories="TWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1709251200000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="183">
442+
<div class="quarto-post image-right" data-index="7" data-categories="TWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1709251200000" data-listing-file-modified-sort="1777291579550" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="183">
443443
<div class="thumbnail"><a href="../research/posts/kilosort.html" class="no-external">
444444

445445
<img loading="lazy" src="../research/posts/images/kilosort_logo_small.png" class="thumbnail-image" alt="spikes colored by amplitude along probe">
@@ -468,7 +468,7 @@ <h3 class="no-anchor listing-title">
468468
</a>
469469
</div>
470470
</div>
471-
<div class="quarto-post image-right" data-index="8" data-categories="QmVoYXZpb3IlMkNUaG91c2FuZHMlMjBvZiUyMG5ldXJvbnMlMkNNYWNoaW5lJTIwbGVhcm5pbmclMkNUb29scw==" data-listing-date-sort="1698796800000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="255">
471+
<div class="quarto-post image-right" data-index="8" data-categories="QmVoYXZpb3IlMkNUaG91c2FuZHMlMjBvZiUyMG5ldXJvbnMlMkNNYWNoaW5lJTIwbGVhcm5pbmclMkNUb29scw==" data-listing-date-sort="1698796800000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="255">
472472
<div class="thumbnail"><a href="../research/posts/facemap.html" class="no-external">
473473

474474
<img loading="lazy" src="https://raw.githubusercontent.com/MouseLand/facemap/main/facemap/mouse.png" class="thumbnail-image" alt="facemap">
@@ -501,7 +501,7 @@ <h3 class="no-anchor listing-title">
501501
</a>
502502
</div>
503503
</div>
504-
<div class="quarto-post image-right" data-index="9" data-categories="U2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1667779200000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="597">
504+
<div class="quarto-post image-right" data-index="9" data-categories="U2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1667779200000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="597">
505505
<div class="thumbnail"><a href="../research/posts/cellpose2.html" class="no-external">
506506

507507
<img loading="lazy" src="../research/posts/images/cellpose2_cover.png" class="thumbnail-image" alt="retrained network vs original cellpose network on fluorescence and live cell image.">
@@ -532,7 +532,7 @@ <h3 class="no-anchor listing-title">
532532
</a>
533533
</div>
534534
</div>
535-
<div class="quarto-post image-right" data-index="10" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3I=" data-listing-date-sort="1651708800000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="149">
535+
<div class="quarto-post image-right" data-index="10" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3I=" data-listing-date-sort="1651708800000" data-listing-file-modified-sort="1777291579551" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="149">
536536
<div class="thumbnail"><a href="../research/posts/notso.html" class="no-external">
537537

538538
<img loading="lazy" src="../research/posts/images/ns_cover.jpg" class="thumbnail-image" alt="dimensionality of spontaneous activity increases across development, becomes more related to neural activity, and orthogonal to stimulus-driven activity.">
@@ -561,7 +561,7 @@ <h3 class="no-anchor listing-title">
561561
</a>
562562
</div>
563563
</div>
564-
<div class="quarto-post image-right" data-index="11" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25z" data-listing-date-sort="1635724800000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="598">
564+
<div class="quarto-post image-right" data-index="11" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25z" data-listing-date-sort="1635724800000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="598">
565565
<div class="thumbnail"><a href="../research/posts/highprecision.html" class="no-external">
566566

567567
<img loading="lazy" src="../research/posts/images/hp_cover2.jpg" class="thumbnail-image" alt="highly precise encoding of visual stimuli">
@@ -590,7 +590,7 @@ <h3 class="no-anchor listing-title">
590590
</a>
591591
</div>
592592
</div>
593-
<div class="quarto-post image-right" data-index="12" data-categories="U2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1609459200000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="393">
593+
<div class="quarto-post image-right" data-index="12" data-categories="U2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1609459200000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="2" data-listing-word-count-sort="393">
594594
<div class="thumbnail"><a href="../research/posts/cellpose.html" class="no-external">
595595

596596
<img loading="lazy" src="../research/posts/images/cellpose_cover.png" class="thumbnail-image">
@@ -621,7 +621,7 @@ <h3 class="no-anchor listing-title">
621621
</a>
622622
</div>
623623
</div>
624-
<div class="quarto-post image-right" data-index="13" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25z" data-listing-date-sort="1559347200000" data-listing-file-modified-sort="1777291542766" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="829">
624+
<div class="quarto-post image-right" data-index="13" data-categories="VmlzaW9uJTJDVGhvdXNhbmRzJTIwb2YlMjBuZXVyb25z" data-listing-date-sort="1559347200000" data-listing-file-modified-sort="1777291579468" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="5" data-listing-word-count-sort="829">
625625
<div class="thumbnail"><a href="../research/posts/highdim.html" class="no-external">
626626

627627
<img loading="lazy" src="../research/posts/images/hd_cover.png" class="thumbnail-image" alt="neural activity reconstructed from subsets of principal components, and sorted by rastermap">
@@ -650,7 +650,7 @@ <h3 class="no-anchor listing-title">
650650
</a>
651651
</div>
652652
</div>
653-
<div class="quarto-post image-right" data-index="14" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3IlMkNNYWNoaW5lJTIwbGVhcm5pbmc=" data-listing-date-sort="1557014400000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="700">
653+
<div class="quarto-post image-right" data-index="14" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDQmVoYXZpb3IlMkNNYWNoaW5lJTIwbGVhcm5pbmc=" data-listing-date-sort="1557014400000" data-listing-file-modified-sort="1777291579551" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="4" data-listing-word-count-sort="700">
654654
<div class="thumbnail"><a href="../research/posts/spontaneous.html" class="no-external">
655655

656656
<img loading="lazy" src="../research/posts/images/spont_cover.jpeg" class="thumbnail-image" alt="neural activity predicted from the principal components of mouse face motion">
@@ -681,7 +681,7 @@ <h3 class="no-anchor listing-title">
681681
</a>
682682
</div>
683683
</div>
684-
<div class="quarto-post image-right" data-index="15" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDU2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1472688000000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="141">
684+
<div class="quarto-post image-right" data-index="15" data-categories="VGhvdXNhbmRzJTIwb2YlMjBuZXVyb25zJTJDU2VnbWVudGF0aW9uJTJDTWFjaGluZSUyMGxlYXJuaW5nJTJDVG9vbHM=" data-listing-date-sort="1472688000000" data-listing-file-modified-sort="1777291579551" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="1" data-listing-word-count-sort="141">
685685
<div class="thumbnail"><a href="../research/posts/suite2p.html" class="no-external">
686686

687687
<img loading="lazy" src="../research/posts/images/suite2p_cover.jpg" class="thumbnail-image" alt="neuron traces and masks">
@@ -714,7 +714,7 @@ <h3 class="no-anchor listing-title">
714714
</a>
715715
</div>
716716
</div>
717-
<div class="quarto-post image-right" data-index="16" data-categories="TmV1cmFsJTIwbW9kZWxpbmclMkNCZWhhdmlvcg==" data-listing-date-sort="1462060800000" data-listing-file-modified-sort="1777291542863" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="463">
717+
<div class="quarto-post image-right" data-index="16" data-categories="TmV1cmFsJTIwbW9kZWxpbmclMkNCZWhhdmlvcg==" data-listing-date-sort="1462060800000" data-listing-file-modified-sort="1777291579550" data-listing-date-modified-sort="NaN" data-listing-reading-time-sort="3" data-listing-word-count-sort="463">
718718
<div class="thumbnail"><a href="../research/posts/inhibitory.html" class="no-external">
719719

720720
<img loading="lazy" src="../research/posts/images/inh_cover.jpg" class="thumbnail-image" alt="neuronal network simulations fit to neural population activity">

research/publications.html

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -174,7 +174,7 @@ <h2 id="toc-title">On this page</h2>
174174
<h3 class="anchored" data-anchor-id="preprints">preprints</h3>
175175
<p>Miguel Angel Nuñez-Ochoa, Fengtong Du, Lin Zhong, Scott Baptista, Michalis Michaelos, Alex Sohn, Liad Baruchin, Sylvia Schröder, Carsen Stringer<sup></sup>, Marius Pachitariu<sup></sup>. <a href="https://www.biorxiv.org/content/10.64898/2026.04.21.719991v1.abstract">Linking neural representations to behavior using generalization</a>. <em>bioRxiv</em>, 2026.</p>
176176
<p>Paul K LaFosse, Daniel Flickinger, Georg Jaindl, Antonia Drinnenberg, Sverre Grødem, Kristian K Lensjø, Charu Ramakrishnan, La’Akea Siverts, Hongkui Zeng, Bosiljka Tasic, Tanya L Daigle, Marianne Fyhn, Karl Deisseroth, Carsen Stringer<sup></sup>, Marius Pachitariu<sup></sup>. <a href="https://www.biorxiv.org/content/10.64898/2026.04.21.719951v1.abstract">Raster photostimulation of large-scale neural populations</a>. <em>bioRxiv</em>, 2026.</p>
177-
<p>Atika Syeda, Miguel Angel Núñez-Ochoa, Lin Zhong, Marius Pachitariu, Carsen Stringer. <a href="https://www.biorxiv.org/content/10.64898/2026.02.04.703800v1.abstract">Orofacial behaviors, not eye movements, govern neural activity in mouse visual cortex</a>. <em>bioRxiv</em>, 2026.</p>
177+
<p>Atika Syeda, Miguel Angel Núñez-Ochoa, Lin Zhong, Marius Pachitariu<sup></sup>, Carsen Stringe<sup></sup>r. <a href="https://www.biorxiv.org/content/10.64898/2026.02.04.703800v1.abstract">Orofacial behaviors, not eye movements, govern neural activity in mouse visual cortex</a>. <em>bioRxiv</em>, 2026.</p>
178178
<p>Carsen Stringer, Chris Ki, Nicholas Del Grosso, Paul LaFosse, Qingqing Zhang, Marius Pachitariu. <a href="https://www.biorxiv.org/content/10.64898/2026.02.04.703741v1.abstract">Extracting large-scale neural activity with Suite2p</a>. <em>bioRxiv</em>, 2026.</p>
179179
<p>Shreyas Muralidharan, Calvin Leng, Lucas Orts, Ethan Trepka, Shude Zhu, Matthew Panichello, Donatas Jonikaitis, Jacob Pennington, Marius Pachitariu, Tirin Moore. <a href="https://www.biorxiv.org/content/10.64898/2025.12.29.696938v3.abstract">A System for Live Sorting of Neuronal Spiking Activity from Large-scale Recordings</a>. <em>bioRxiv</em>, 2026.</p>
180180
<p>Sean O’Connell, Jonathan A Michaels, Runming Wang, Sahit Mamidipaka, Manikandan Venkatesh, Nevin Aresh, Marius Pachitariu, J Andrew Pruszynski, Samuel J Sober, Chethan Pandarinath. <a href="https://www.biorxiv.org/content/10.64898/2026.01.06.697952.abstract">High performance sorting of motor unit action potentials with EMUsort</a>. <em>bioRxiv</em>, 2026.</p>

0 commit comments

Comments
 (0)