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#DeepLabCut

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2i2c<p><span class="h-card" translate="no"><a href="https://hachyderm.io/@choldgraf" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>choldgraf</span></a></span> visited the <a href="https://hachyderm.io/tags/deeplabcut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>deeplabcut</span></a> team <span class="h-card" translate="no"><a href="https://hachyderm.io/@TrackingActions" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>TrackingActions</span></a></span> 's lab, EPFL, in early August to learn how they used open-source tools to share work. Learn how a <span class="h-card" translate="no"><a href="https://fosstodon.org/@mystmarkdown" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>mystmarkdown</span></a></span> mini-hackathon facilitated learning and accelerated contributions to the project <a href="https://2i2c.org/blog/2024/deeplabcut-myst-hackathon/" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">2i2c.org/blog/2024/deeplabcut-</span><span class="invisible">myst-hackathon/</span></a> 📖</p>
El Duvelle Neuro<p>Seen on the <a href="https://neuromatch.social/tags/NeuroMethods" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>NeuroMethods</span></a> slack:</p><p>Any suggestions for algorithms to track pupil in mice? (Not <a href="https://neuromatch.social/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> )</p><p><a href="https://neuromatch.social/tags/AnimalBehaviour" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>AnimalBehaviour</span></a> <a href="https://neuromatch.social/tags/Tracking" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Tracking</span></a></p>
Thorbjörn Sievert<p>Good morning <a href="https://fediscience.org/tags/ISOT2024" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ISOT2024</span></a>!<br>Today's the last poster session of the meeting @ISOT2024Iceland@twitter.com, so come and stop by to chat.</p><p>I'll try to be around during most breaks!</p><p>If you're interested in <a href="https://fediscience.org/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> (or <a href="https://fediscience.org/tags/MoSeq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>MoSeq</span></a>), definitely come and chat!</p>
Fabrizio Musacchio<p>I have added a hands-on <a href="https://sigmoid.social/tags/tutorial" class="mention hashtag" rel="tag">#<span>tutorial</span></a> to the Assessing Animal Behavior lecture. The tutorial covers the GUI-based use of <a href="https://sigmoid.social/tags/DeepLabCut" class="mention hashtag" rel="tag">#<span>DeepLabCut</span></a> 💻, a software package for markerless pose estimation of animals 🐭🔍 It’s aimed at <a href="https://sigmoid.social/tags/neuroscience" class="mention hashtag" rel="tag">#<span>neuroscience</span></a> students with no or little programming knowledge. Feel free to share it with your students and colleagues ☺️</p><p>🌍 <a href="https://www.fabriziomusacchio.com/teaching/teaching_assessing_animal_behavior/05_deeplabcut" target="_blank" rel="nofollow noopener" translate="no"><span class="invisible">https://www.</span><span class="ellipsis">fabriziomusacchio.com/teaching</span><span class="invisible">/teaching_assessing_animal_behavior/05_deeplabcut</span></a></p><p><a href="https://sigmoid.social/tags/Ethology" class="mention hashtag" rel="tag">#<span>Ethology</span></a> <a href="https://sigmoid.social/tags/MachineLearning" class="mention hashtag" rel="tag">#<span>MachineLearning</span></a> <a href="https://sigmoid.social/tags/behaviourscience" class="mention hashtag" rel="tag">#<span>behaviourscience</span></a> <a href="https://sigmoid.social/tags/BehavioralScience" class="mention hashtag" rel="tag">#<span>BehavioralScience</span></a> <a href="https://sigmoid.social/tags/animalbehavior" class="mention hashtag" rel="tag">#<span>animalbehavior</span></a></p>
Jeffrey Perkel<p>New this week <span class="h-card" translate="no"><a href="https://mstdn.social/@Nature" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>Nature</span></a></span>, Mackenzie and Alexander Mathis (<span class="h-card" translate="no"><a href="https://hachyderm.io/@TrackingActions" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>TrackingActions</span></a></span>) were still early in their careers when their <a href="https://sciencemastodon.com/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> software created a sensation. Now they’re using it to support other young scientists. 🧪 <a href="https://www.nature.com/articles/d41586-024-01474-x" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://www.</span><span class="ellipsis">nature.com/articles/d41586-024</span><span class="invisible">-01474-x</span></a></p>
Niko Sirmpilatze<p>Anyone here working on <a href="https://neuromatch.social/tags/PoseEstimation" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>PoseEstimation</span></a> <a href="https://neuromatch.social/tags/animalbehavior" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>animalbehavior</span></a> <a href="https://neuromatch.social/tags/neuroethology" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>neuroethology</span></a> ?</p><p>You may be interested in the free and open-source Python 🐍 package I’m currently working on, together with <span class="h-card" translate="no"><a href="https://mastodon.online/@adamltyson" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>adamltyson</span></a></span> <span class="h-card" translate="no"><a href="https://neuromatch.social/@bd_peri" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>bd_peri</span></a></span> and others. </p><p>It’s called movement, and it’s made for analysing the pose tracks produced by pose estimation frameworks, like <a href="https://neuromatch.social/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> and <a href="https://neuromatch.social/tags/SLEAP" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>SLEAP</span></a>. </p><p>Website: <a href="https://movement.neuroinformatics.dev" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="">movement.neuroinformatics.dev</span><span class="invisible"></span></a><br>GitHub: <a href="https://github.com/neuroinformatics-unit/movement" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/neuroinformatics-un</span><span class="invisible">it/movement</span></a></p><p>It’s still in early development 🏗️ but we appreciate feedback/feature requests.</p><p>Check out the detailed thread on our team’s mastodon account: <span class="h-card" translate="no"><a href="https://mastodon.online/@neuroinformatics" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>neuroinformatics</span></a></span></p>
Thorbjörn Sievert<p>Well, it's time again: I'm officially looking for a new <a href="https://fediscience.org/tags/PostDoc" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>PostDoc</span></a> </p><p>Please share far and wide! </p><p>My expertise lies in behavioral ecology, focused on mammalian chemical communication. I've also been exploring <a href="https://fediscience.org/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> &amp; <a href="https://fediscience.org/tags/MoSeq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>MoSeq</span></a> for automated behavior analysis.</p><p>For more info about my research &amp; background, visit my newly revamped website <a href="https://tsievert.com/" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="">tsievert.com/</span><span class="invisible"></span></a><br>Shout-out to my friend Ramin at websplash GmbH for the fantastic redesign!</p><p><a href="https://fediscience.org/tags/PostDocJob" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>PostDocJob</span></a> <a href="https://fediscience.org/tags/AcademicJobs" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>AcademicJobs</span></a> <a href="https://fediscience.org/tags/AcademicLive" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>AcademicLive</span></a> <a href="https://fediscience.org/tags/AcademicChatter" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>AcademicChatter</span></a></p>
Thorbjörn Sievert<p>We recently made our lab's handbook for <a href="https://fediscience.org/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> public!<br>It's not finished yet and quite rough on the edges, but you can watch us (well, me) struggle in the process of trying to establish <a href="https://fediscience.org/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> in our lab.</p><p>The handbook also includes <a href="https://fediscience.org/tags/HowTo" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>HowTo</span></a>.s and scripts to run everything on a HPC cluster.</p><p>Long-term aim is to also include guides and scripts for <a href="https://fediscience.org/tags/KeypointMoseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>KeypointMoseq</span></a>.</p><p>Check it out at <a href="https://github.com/LassanceLab/DLC_handbook" rel="nofollow noopener" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/LassanceLab/DLC_han</span><span class="invisible">dbook</span></a></p><p><a href="https://fediscience.org/tags/openscience" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>openscience</span></a> <a href="https://fediscience.org/tags/opencode" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>opencode</span></a> <a href="https://fediscience.org/tags/opendata" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>opendata</span></a></p>
Mackenzie Mathis 🦄<p>Going forward, <a href="https://hachyderm.io/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> updates will come via medium (and GitHub of course), but not the bird. This is sad, as the science Twitter community, I believe, was so important in getting out the word early on our very first code release and paper. But, it’s not okay anymore 💔… </p><p>📣🚨To get the latest updates on our code releases going forward, please see our medium blog <a href="http://www.deeplabcut.medium.com" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">http://www.</span><span class="">deeplabcut.medium.com</span><span class="invisible"></span></a> and all resources linked on our homepage: <a href="http://DeepLabCut.org" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">http://</span><span class="">DeepLabCut.org</span><span class="invisible"></span></a> - take care <a href="https://hachyderm.io/tags/deeplabcutters" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>deeplabcutters</span></a> 🙏🏼💜</p>
Albert Cardona<p>Have you discovered the image processing forum yet? <a href="https://forum.image.sc" rel="nofollow noopener" target="_blank"><span class="invisible">https://</span><span class="">forum.image.sc</span><span class="invisible"></span></a></p><p>Featuring tutorials, requests for guidance, help, discussion of new features and documentation for open source software <a href="https://qoto.org/tags/FijiSc" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>FijiSc</span></a> <a href="https://qoto.org/tags/ImageJ" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ImageJ</span></a> <a href="https://qoto.org/tags/CellProfiler" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>CellProfiler</span></a> <a href="https://qoto.org/tags/DeepLabCut" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DeepLabCut</span></a> <a href="https://qoto.org/tags/Icy" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Icy</span></a> <a href="https://qoto.org/tags/ilastik" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ilastik</span></a> <a href="https://qoto.org/tags/napari" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>napari</span></a> <a href="https://qoto.org/tags/QuPath" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>QuPath</span></a> <a href="https://qoto.org/tags/scikitimage" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>scikitimage</span></a> <a href="https://qoto.org/tags/StarDist" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>StarDist</span></a> and many more.<br><a href="https://qoto.org/tags/java" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>java</span></a> <a href="https://qoto.org/tags/python" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>python</span></a> <a href="https://qoto.org/tags/kotlin" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>kotlin</span></a> <a href="https://qoto.org/tags/groovy" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>groovy</span></a></p>