https://jinyung.github.io/ WONG Jin Yung Source Themes Academic (https://sourcethemes.com/academic/)en-us©2026 Wong Jin YungTue, 14 Jul 2026 00:00:00 +0000 https://jinyung.github.io/images/icon_hud9e986e855b8e3846c4fec80f7a61c84_40920_512x512_fill_lanczos_center_3.png https://jinyung.github.io/ https://jinyung.github.io/publication/will-2026-3d-printing/ Tue, 14 Jul 2026 00:00:00 +0000 https://jinyung.github.io/publication/will-2026-3d-printing/ https://jinyung.github.io/publication/tsai-2026-dnadetr/ Mon, 01 Jun 2026 00:00:00 +0000 https://jinyung.github.io/publication/tsai-2026-dnadetr/ https://jinyung.github.io/courses/bioinformatics/ Fri, 08 May 2026 00:00:00 +0000 https://jinyung.github.io/courses/bioinformatics/ <h2 id="course-code">Course code</h2> <ul> <li><code>MBR357</code> (undergrad), under the Department of Marine Biotechnology and Resources.</li> <li><code>DO451</code>(undergrad)/ <code>DO727</code>(grad), under the Department of Oceanography.</li> </ul> <h2 id="semesters-taught">Semesters taught</h2> <p>115-1 (offered every year in the first semester)</p> <h2 id="course-description">Course description</h2> <p>Bioinformatics integrates biology, statistics and computer science. This course is suitable for students who want to learn how to use computers to run analysis by building pipelines from existing software, or by designing a new algorithm. I will use some classical problems to demonstrate: sequence alignment, phylogeny reconstruction, motif finding, etc. The focus is not on the topics <em>per se</em>, but rather on how we formulate them as computationally solvable problems. The course is therefore designed to be general, with the hopes that the skills and concepts learned will be transferable across the vast number of topics in bioinformatics, and even outside of biology. Therefore, this course is also suitable for students with little biology background.</p> <p>The first part of the course focuses on the practical data analysis. Students will learn how to work in a Linux virtual machine (using <a href="https://github.com/features/codespaces" target="_blank" rel="noopener">Github Codespaces</a>):</p> <ul> <li>How to identify suitable software for a question</li> <li>How to install software for reproducible analysis</li> <li>How to format inputs and outputs so that different software tools can work together</li> <li>How to combine multiple software tools into a pipeline</li> <li>How to work with large files</li> </ul> <p>These basics are best taught in a command line interface, inside a Linux environment so that students can better understand how a computer works.</p> <p>The second part of the course focuses on learning the algorithms underlying these software. Students will learn:</p> <ul> <li>How many possible solutions does this problem have?</li> <li>How can we score a solution?</li> <li>How can we find the solution with the best score using the least computation?</li> <li>When the number of possibilities is too large, how can we find an approximate best solution?</li> </ul> <p>Specifically, I will focus on the concepts (or their simplifications) of <strong>Dynamic Programming (DP)</strong>, <strong>Maximum Likelihood Estimation (MLE)</strong>, and <strong>Expectation Maximization (EM)</strong>, etc. I will spend a significant amount of time on DP, building from the basic concepts of recursion and graph representation.</p> <p>In the last part of the course, I will briefly introduce students to the concept of deep learning (DL), as it has become increasingly important in bioinformatics. The goal here is to connect the optimization methods students learned in the previous part to how DL models works with <strong>gradient descent</strong>.</p> <h2 id="prerequisite">Prerequisite</h2> <ul> <li><strong>Biological knowledge</strong>: Students only need to know that DNA is the genetic material of living organisms and that it consists of four letters: A, G, T, and C. That is all.</li> <li><strong>Programming experience</strong>: Prior programming experience is <strong>NOT</strong> required, but it will be helpful. In the first part of the course, I will teach the necessary computational skills from scratch. In the second part, the focus will shift toward problem-solving by hand. Coding is less central in the age of AI; problem formulation and understanding algorithms are more important.</li> </ul> <h2 id="syllabus">Syllabus</h2> <ul> <li>to be updated</li> </ul> https://jinyung.github.io/courses/advanced_scientific_eng/ Sat, 10 Jan 2026 00:00:00 +0000 https://jinyung.github.io/courses/advanced_scientific_eng/ <h2 id="course-code">Course code</h2> <p><code>DO405</code> (undergrad) / <code>DO701</code> (postgrad), under the Department of Oceanography</p> <h2 id="semesters-taught">Semesters taught</h2> <p>114-2 (offered every year in the second semester)</p> <h2 id="course-description">Course description</h2> <p>This course is designed for graduate students and students preparing to pursue graduate studies who wish to level up their scientific English skills. Students will learn to read and write with intent by adopting the perspectives of reviewers.</p> <p>In the first part of the course, students will be trained to read research papers not only as readers, but also as reviewers. By learning what reviewers look for when preparing an evaluation report, students will learn to read more efficiently and critically.</p> <p>In the second part of the course, students will apply this perspective to their own writing by developing a research proposal. They will revise their work through iterative, role-based feedback, alternating between the roles of author and reviewer to make their writing clear and easy to navigate for a potential reviewer. When teaching writing style, I recommend the <a href="https://doi.org/10.1371/journal.pcbi.1005619" target="_blank" rel="noopener">&ldquo;Context-Content-Conclusion&rdquo;</a> approach. It is one of many popular styles that make writing easy to read.</p> <p>Throughout the course, students will learn to use AI tools to support the processes of reading and writing, while maintaining control over their intent, rather than accepting everything from AI tools uncritically.</p> <h2 id="prerequisite">Prerequisite</h2> <p>This course is intended for students with at least upper-intermediate English proficiency.</p> https://jinyung.github.io/courses/life_science/ Sat, 10 Jan 2026 00:00:00 +0000 https://jinyung.github.io/courses/life_science/ <h2 id="course-code">Course code</h2> <p><code>GEAE2514A</code>/<code>GEAE2514B</code> (undergrad), under general education courses</p> <h2 id="semesters-taught">Semesters taught</h2> <p>113-1, 113-2, 114-1, 114-2, 115-1 (offered regularly every semester)</p> <h2 id="course-description">Course description</h2> <p>I cover half of this general education course, focusing on the evolution of organisms and their interactions with each other and with the environments they inhabit.</p> <p>The class is designed for non-biology majors and introduces students to the fascinating world of living organisms. I aim to show that life sciences are highly relatable and touch on fundamental questions related to our own existence and daily life. I also connect life sciences to other disciplines, so students from different majors can see how these ideas connect with their fields.</p> <p>Here are some of the topics I will cover:</p> <ul> <li>Evolution by natural selection is a big idea. Where did it come from? Influences on Charles Darwin, including economic theories of resource competition.</li> <li>Why Charles Darwin&rsquo;s theory of evolution is not just about &ldquo;survival of the fittest&rdquo;.</li> <li>Mutation can cause cancer, yet without it long term evolution is impossible.</li> <li>Survival of the luckiest: not all evolutionary changes are adaptations; some are simply the outcome of random sampling.</li> <li>Nature vs. Nurture: If evolution acts only on genes, does choice still matter?</li> <li>To fight or not to fight? Peace benefits everyone, but why it is so hard to maintain and why doesn&rsquo;t aggression take over entirely in nature?</li> <li>If evolution acts on individual rather than group survival, how can cooperation and even self-sacrificial behavior evolve?</li> <li>Why have peacocks evolved a large, colorful tail that handicaps them? How sexual selection explains &ldquo;illogical&rdquo; mate choice in animals.</li> <li>Will the human population continue to grow? What limits it, and how does it compare to other organisms?</li> <li>Why do animal populations cycle or fluctuate? The link to the &ldquo;the butterfly effect&rdquo;</li> <li>If extinction is natural, why should we save species? If survival of the fittest rules nature, why save the losers?</li> <li>The race to resource exploitation: are we doomed, or can we escape &ldquo;the tragedy of the commons&rdquo;? Is reducing consumption the answer?</li> <li>How close are we to climate tipping points? Why didn&rsquo;t we notice them coming earlier?</li> </ul> <h2 id="prerequisite">Prerequisite</h2> <p>None. My classes are quite different from high school biology. It doesn’t matter much whether you have studied biology before.</p> <h2 id="syllabus">Syllabus</h2> <ul> <li>The origin of species and the tree of life</li> <li>Principles of evolution</li> <li>Animal behavior, conflicts and cooperation</li> <li>Sexual selection and evolution summary</li> <li>Population and community ecology</li> <li>The Anthropocene and conservation biology</li> <li>Exam</li> </ul> https://jinyung.github.io/courses/machine_learning/ Sat, 10 Jan 2026 00:00:00 +0000 https://jinyung.github.io/courses/machine_learning/ <h2 id="course-code">Course code</h2> <p><code>DO354</code> (undergrad)/ <code>DO720</code> (postgrad), under the Department of Oceanography</p> <h2 id="semesters-taught">Semesters taught</h2> <p>113-1, 114-1, 115-1 (offered every year in the first semester)</p> <h2 id="course-description">Course description</h2> <p>This course introduces students to machine learning and its applications. Upon completion, students will be able to implement various ML models, from simple linear models to deep learning models, and apply them to problems in marine sciences.</p> <p>The first part of the course focuses on the basic machine learning concepts and implementation with <a href="https://scikit-learn.org/" target="_blank" rel="noopener"><code>scikit-learn</code></a>. More time is spent on coding than on theory in this part to help students become confident with coding and familiar with the general workflow of model training.</p> <p>The second part focuses on the basics of deep learning and implementation using <a href="https://www.tensorflow.org/guide/keras" target="_blank" rel="noopener"><code>Keras/TensorFlow</code></a>. More time is spent on conceptual understanding in this part, i.e., heavy use of blackboard explanations, to help students become confident in explaining how each type of neural network model works.</p> <p>We will use examples in marine sciences throughout the course.</p> <h2 id="prerequisite">Prerequisite</h2> <p>We will use <code>Python</code> for implementation (using <a href="https://colab.research.google.com/" target="_blank" rel="noopener">Google Colab</a>), so students are required to have some programming experience in <code>Python</code>.</p> <h2 id="syllabus">Syllabus</h2> <ul> <li>Introduction to machine learning</li> <li>Python crash course and data preprocessing</li> <li>Regression</li> <li>Classification</li> <li>Dimension reduction</li> <li>Clustering</li> <li>Part 1 summary</li> <li>Mid-term exam / Final project proposal</li> <li>Introduction to deep learning</li> <li>Multilayer perceptron (Part 1: forward propogation and loss function)</li> <li>Multilayer perceptron (Part 2: back propagation and gradient descent)</li> <li>Autoencoder</li> <li>Recurrent neural network</li> <li>Convolutional neural network</li> <li>Transfer learning</li> <li>Part 2 summary</li> <li>Final project presentation</li> </ul> https://jinyung.github.io/courses/moving_fluids/ Sat, 10 Jan 2026 00:00:00 +0000 https://jinyung.github.io/courses/moving_fluids/ <h2 id="course-code">Course code</h2> <p><code>IGPM709</code> (postgrad), under the International graduate program of marine sciences and technology</p> <h2 id="semesters-taught">Semesters taught</h2> <p>113-2, 114-1 (offered non-regularly)</p> <h2 id="course-description">Course description</h2> <p>This is an interdisciplinary graduate course based heavily on the book <em> <a href="https://press.princeton.edu/books/paperback/9780691026169/life-in-moving-fluids" target="_blank" rel="noopener">Life in moving fluids: the physical biology of flow</a></em>, and supplemented with a list of research papers for recent progress of the field.</p> <p>I aim to show that many aspects of the evolution and plasticity of marine organisms are shaped by interactions with their surrounding fluid environment, demonstrated by surprising adaptations and counterintuitive insights into how animals swim and feed.</p> <p>Students will learn key concepts in biological flows through discussion of the book chapters, as well as advanced methods and experimental designs used in biological flow research through discussion of the selected papers.</p> <p>By the end of the course, students are expected to be able to formulate biological questions from the perspective of flow interactions and to critically evaluate research papers in the field.</p> <h2 id="prerequisite">Prerequisite</h2> <p>Students with backgrounds in either biology or physics/ engineering are welcome.</p> <h2 id="syllabus">Syllabus</h2> <ul> <li>Introduction: what is fluid?</li> <li>Drag, scale, and Reynolds number</li> <li>Flow visualization methods</li> <li>Flow field analysis</li> <li>Motion analysis</li> <li>Sessile systems</li> <li>Moving animals</li> <li>Midterm exam</li> <li>Life in velocity gradients and boundary layers</li> <li>Making and using vortices</li> <li>Lift and hydrofoils</li> <li>Thrust of swimming</li> <li>Life at low Reynolds number</li> <li>Advanced topics</li> <li>Final presentation</li> </ul> https://jinyung.github.io/courses/programming/ Sat, 10 Jan 2026 00:00:00 +0000 https://jinyung.github.io/courses/programming/ <h2 id="course-code">Course code</h2> <p><code>DO243A</code> (undergrad), under the Department of Oceanography</p> <h2 id="semesters-taught">Semesters taught</h2> <p>113-2, 114-2 (offered every year in the second semester)</p> <h2 id="course-description">Course description</h2> <p>This course introduces students to basic programming concepts using <code>Python</code>. Upon completion, students will be able to write their own programs in <code>Python</code>.</p> <p>The first part of the course focuses on the basics of programming and the <code>Python</code> language. Students will learn built-in data types and use conditionals and iterations to write their first programs. We will use mostly &ldquo;vanilla&rdquo; <code>Python</code> in this part within the command line interface to build a strong foundation.</p> <p>The second part focuses on using popular external libraries. This part is useful for students learning programming for data analysis. We will use <code>Google Colab</code> to demonstrate how data can be conveniently processed, analyzed and visualized in a notebook format.</p> <p>Finally, students will be introduced to web app development to present their ideas and let users to interact with their programs easily online. We will use <code>Streamlit</code> to demonstrate. For students planning to also take <a href="https://jinyung.github.io/courses/machine_learning/">Machine learning</a> later, this will equip them with the skills to build an interactive web app that allows users to use their model online.</p> <h2 id="prerequisite">Prerequisite</h2> <p>None.</p> <h2 id="syllabus">Syllabus</h2> <ul> <li>Introduction to programming and Python basics</li> <li>Data types</li> <li>Logical operators and conditionals (if-else)</li> <li>Iterations (for loop, while loop, comprehensions, recursion)</li> <li>Function (arguments, variable scopes, testing)</li> <li>Randomization (sampling, simulation)</li> <li>Optional topics depending on progress: parallel processing, intro to programming paradigms (procedural, functional, object-oriented), regular expression</li> <li>Midterm exam and final project proposal</li> <li>Introduction to data analysis libraries and web app development</li> <li>Data frames processing with Pandas</li> <li>Data visualization</li> <li>Numerical analysis with NumPy</li> <li>Building interactive web app I</li> <li>Building interactive web app II</li> <li>Final project presentation</li> <li>Final project presentation</li> </ul> <h2 id="web-app-examples">Web app examples</h2> <ul> <li> <a href="https://jinyung.github.io/DO243A/mnist.html" target="_blank" rel="noopener">Hand written digit predictor</a> (embedded below)</li> <li> <a href="https://jinyung.github.io/DO243A/Typhoon_track_viewer.html" target="_blank" rel="noopener">Typhoon track viewer</a></li> <li> <a href="https://jinyung.github.io/DO243A/K_means.html" target="_blank" rel="noopener">K-means clustering visualization</a></li> <li> <a href="https://jinyung.github.io/DO243A/Ocean_current.html" target="_blank" rel="noopener">Ocean current viewer</a></li> </ul> <h2 id="outstanding-students-works">Outstanding students&rsquo; works</h2> <ul> <li> <a href="https://eddielss96.github.io/earthquake_monitor" target="_blank" rel="noopener">Taiwan&rsquo;s earthquake dashboard</a></li> <li> <a href="https://kaiii1912.github.io/DP_Learning_Hub/" target="_blank" rel="noopener">Dynamic Programming visualization</a></li> <li> <a href="https://hsun0-ga-visualization-main-pro6oa.streamlit.app/" target="_blank" rel="noopener">Genetic Algorithm visualization</a></li> </ul> <figure> <div style="position: relative; padding-bottom: 75%; height: 0;"> <iframe src="https://jinyung.github.io/DO243A/mnist.html" style="position:absolute; width:100%; height:250%; border:1px solid #ddd; border-radius:8px;"> </iframe> </div> </figure> https://jinyung.github.io/join_us/phd_2026_dl/ Tue, 06 Jan 2026 00:00:00 +0000 https://jinyung.github.io/join_us/phd_2026_dl/ <p><strong>Status</strong>: <strong><span style="color:red;">closed</span></strong></p> <p><strong>Project title</strong>:</p> <p>PhD Position: Deep Learning for Multimodal Biodiversity Data (Marine Larvae Focus)</p> <p><strong>About the project</strong>:</p> <p>We are seeking a motivated PhD student to develop a deep learning framework for the comparative study of multimodal biodiversity data, with a focus on marine larvae. The goal is to use modern deep learning methods to build a system that supports efficient data exploration, meaningful interpretation, and biologically plausible prediction across different data types.</p> <p>The position is part of a funded project that involves both data collection and model development. We will collect data from marine larvae for model training; however, the framework will be applicable to multimodal data in general.</p> <p><strong>Required qualifications</strong> :</p> <ul> <li>Master&rsquo;s degree (Bioinformatics, Data Science, Oceanography, Biology or other relevant fields)</li> <li>Demonstrated programming experience (through completed independent project)</li> <li>Strong interest in interdisciplinary research</li> <li>Good written and spoken English</li> </ul> <p><strong>Desirable skills</strong> :</p> <ul> <li>Experience with deep learning frameworks (Pytorch or Tensorflow)</li> <li>Basic knowledge of databases or web application development</li> <li>Background in evolutionary biology, marine larvae, or geometric morphometrics</li> </ul> <p><strong>About the position</strong> :</p> <p>The successful candidate will register as a PhD student under the <a href="https://igpmst.nsysu.edu.tw/" target="_blank" rel="noopener">International Doctoral Program of Marine Science and Technology</a> at National Sun Yat-sen University, Kaohsiung, Taiwan.</p> <p><strong>Financial supports</strong>:</p> <p>Various sources of <a href="https://igpmst.nsysu.edu.tw/p/412-1314-27368.php?Lang=en" target="_blank" rel="noopener">PhD scholarships</a> are available. Additional financial support are available in the form of teaching assistantships and research assistantships. Performance-based incentives is offered based on research output.</p> <p><strong>About the lab</strong>:</p> <p>We use interdisciplinary approaches to study problems in evolution and ecology in marine environments, including experimental fluid dynamics and deep learning.</p> <p><strong>How to apply</strong>:</p> <p>Please email your cover letter, CV, transcript, and contact details for referees in a single PDF file to Dr. Jin Yung Wong: <a href="mailto:wongjinyung@mail.nsysu.edu.tw">wongjinyung@mail.nsysu.edu.tw</a> . If you are unsure about your suitability for the project or are more interested in the experimental component, you are welcome to contact for inquiry.</p> https://jinyung.github.io/publication/chen-2023-spiffed/ Fri, 16 Jun 2023 00:00:00 +0000 https://jinyung.github.io/publication/chen-2023-spiffed/ https://jinyung.github.io/publication/chang-2023-deep-circle/ Fri, 21 Apr 2023 00:00:00 +0000 https://jinyung.github.io/publication/chang-2023-deep-circle/ https://jinyung.github.io/publication/branam-2021-tail/ Thu, 01 Apr 2021 00:00:00 +0000 https://jinyung.github.io/publication/branam-2021-tail/ https://jinyung.github.io/publication/wong-2020-cyprid/ Wed, 14 Oct 2020 00:00:00 +0000 https://jinyung.github.io/publication/wong-2020-cyprid/ <h2 id="supplementary-videos">Supplementary Videos</h2> <h3 id="video-s1">Video S1</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/24epw/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/24epw/?direct%26mode=render">Download video from OSF</a>. </video> <!--<iframe src="https://mfr.osf.io/render?url=https://osf.io/download/24epw/?direct%26mode=render" width = "100%" height="500px" scrolling="yes" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen class="myIframe" ></iframe> --> <p>Movement tracking of swimming <em>Capitulum mitella</em> nauplius VI from ventral view (50× slow motion).</p> <h3 id="video-s2">Video S2</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/56cdq/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/56cdq/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/56cdq/?direct%26mode=render" width="100%" scrolling="yes" height="500px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Movement tracking of swimming <em>Capitulum mitella</em> cyprid from dorsal view (100× slow motion).</p> <h3 id="video-s3">Video S3</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/z2jfn/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/z2jfn/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/z2jfn/?direct%26mode=render" width="100%" scrolling="yes" height="500px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Velocity and vorticity fields around swimming <em>Capitulum mitella</em> nauplius VI from ventral view (50× slow motion; same individual as in Video S1). Nauplius swam in Re of 2.6.</p> <h3 id="video-s4">Video S4</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/ufx6d/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/ufx6d/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/ufx6d/?direct%26mode=render" width="100%" scrolling="yes" height="500px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Velocity and vorticity fields around swimming <em>Capitulum mitella</em> cyprid from dorsal view (100× slow motion; same individual as in Video S2). Cyprid swam in Re of 4.8.</p> <h3 id="video-s5">Video S5</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/t23m5/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/t23m5/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/t23m5/?direct%26mode=render" width="100%" scrolling="yes" height="500px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Separation of velocity stagnation points from vorticity maximums/ minimums in trailing viscous wake vortices of cyprid (1000x slow motion). Individual used is identical to the one in Video S4.</p> <h3 id="video-s6">Video S6</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/bre5g/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/bre5g/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/bre5g/?direct%26mode=render" width="100%" scrolling="yes" height="500px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Velocity and vorticity fields around swimming <em>Capitulum mitella</em> nauplius III from ventral view (50× slow motion). Nauplius swam in Re of 0.6.</p> <h3 id="video-s7">Video S7</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/ms4xq/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/ms4xq/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/ms4xq/?direct%26mode=render" width="100%" scrolling="yes" height="500px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Velocity and vorticity fields around swimming <em>Capitulum mitella</em> cyprid from dorsal view (100× slow motion). Cyprid swim in Re of 1.8.</p> https://jinyung.github.io/publication/wong-2020-trophicmode/ Fri, 17 Apr 2020 00:00:00 +0000 https://jinyung.github.io/publication/wong-2020-trophicmode/ <h2 id="supplementary-videos">Supplementary Videos</h2> <h3 id="video-s1">Video S1</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/548qt/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/548qt/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/548qt/?direct%26mode=render" width="100%" scrolling="yes" height="800px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>High speed video of swimming barnacle nauplii at 100× slow motion. <strong>Top</strong>, nauplius of common intertidal barnacle, <em>Tetraclita japonica</em>; <strong>bottom</strong>, nauplius of the parasitic Rhizocephalan barnacle, <em>Polyascus planus</em></p> <h3 id="video-s2">Video S2</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/nqr7s/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/nqr7s/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/nqr7s/?direct%26mode=render" width="100%" scrolling="yes" height="280px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Kinematics analysis on appendage movements of the planktotrophic <em>Tetraclita</em> nauplius</p> <h3 id="video-s3">Video S3</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/ktw6x/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/ktw6x/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/ktw6x/?direct%26mode=render" width="100%" scrolling="yes" height="280px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Kinematics analysis on appendage movements of the lecithotrophic <em>Polyascus</em> nauplius</p> <h3 id="video-s4">Video S4</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/m952x/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/m952x/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/m952x/?direct%26mode=render" width="100%" scrolling="yes" height="800px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> <p>Velocity and vorticity fields around swimming nauplii from dorsal view (100× slow motion)</p> <h3 id="video-s5">Video S5</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/nfh2b/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/nfh2b/?direct%26mode=render">Download video from OSF</a>. </video> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/nfh2b/?direct%26mode=render" width="100%" scrolling="yes" height="800px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> Velocity and vorticity fields around swimming nauplii from lateral view (100× slow motion) <h3 id="video-s6">Video S6</h3> <video controls width="100%" preload="metadata"> <source src="https://osf.io/download/z3chv/?direct%26mode=render" type="video/mp4"> Your browser cannot play this video. <a href="https://osf.io/download/z3chv/?direct%26mode=render">Download video from OSF</a>. </video <p>Animation of particle tracking during recovery strokes from side view (200× slow motion)</p> <!-- <iframe src="https://mfr.osf.io/render?url=https://osf.io/download/z3chv/?direct%26mode=render" width="100%" scrolling="yes" height="360px" marginheight="0" frameborder="0" allowfullscreen webkitallowfullscreen ></iframe> --> https://jinyung.github.io/publication/wong-2018-naupliimorph/ Thu, 01 Nov 2018 00:00:00 +0000 https://jinyung.github.io/publication/wong-2018-naupliimorph/ <h2 id="interactive-plots">Interactive plots</h2> <h3 id="figure-1">Figure 1</h3> <h4 id="b">B</h4> <div id="/json/fig1.json" class="plotly" style="height:500px;"></div> <script> d3.json("/json/fig1.json").then(function (fig) { Plotly.newPlot('\/json\/fig1.json', fig.data, fig.layout, { responsive: true }); }); </script> <p>Outline reconstructed from elliptic Fourier analysis. <strong>Drag the slider</strong> to view reconstructed outlines using different number of harmonics. Note how quickly the outlines change in the first 20 harmonics but little improvement after that.</p> <h3 id="figure-2">Figure 2</h3> <h4 id="a">A</h4> <p> <div id="/json/fig2_1.json" class="plotly" style="height:500px;"></div> <script> d3.json("/json/fig2_1.json").then(function (fig) { Plotly.newPlot('\/json\/fig2_1.json', fig.data, fig.layout, { responsive: true }); }); </script> Plot of first two principal component scores from principal component analysis (PCA) on outline shape of stage II barnacle nauplii. <strong>Mouse over</strong> to see species name and other information of data points.</p> <h3 id="figure-3">Figure 3</h3> <h4 id="b-1">B</h4> <p> <div id="/json/fig3_1.json" class="plotly" style="height:500px;"></div> <script> d3.json("/json/fig3_1.json").then(function (fig) { Plotly.newPlot('\/json\/fig3_1.json', fig.data, fig.layout, { responsive: true }); }); </script> Shape score associated with size estimated from multivariate regression of shape of nauplii outlines on size. <strong>Mouse over</strong> to see species name and other information of data points.</p> <h4 id="c">C</h4> <p> <div id="/json/fig3_2.json" class="plotly" style="height:500px;"></div> <script> d3.json("/json/fig3_2.json").then(function (fig) { Plotly.newPlot('\/json\/fig3_2.json', fig.data, fig.layout, { responsive: true }); }); </script> Predicted shapes from regression of shape on size. <strong>Drag the slider</strong> to view predicted shapes at different percentiles of size.</p> <h3 id="figure-4">Figure 4</h3> <h4 id="a-1">A</h4> <iframe width="100%" height="500" frameborder="0" scrolling="no" src="//plotly.com/~jinyung/1.embed?showlink=false"></iframe> <p><strong>Drag the slider</strong> to view what allometry adjustment does to the PCA morphospace.</p> <h3 id="figure-5">Figure 5</h3> <div id="/json/fig5.json" class="plotly" style="height:500px;"></div> <script> d3.json("/json/fig5.json").then(function (fig) { Plotly.newPlot('\/json\/fig5.json', fig.data, fig.layout, { responsive: true }); }); </script> <p><strong>Use drop down menu</strong> to view the sub-plots: A) phylomorphospace and adult habitats; B) larval habitats; and C) nauplius duration. <strong>Mouse over</strong> to see species name and other information of data points.</p> https://jinyung.github.io/publication/wong-2016-sciaenidotolith/ Fri, 01 Jan 2016 00:00:00 +0000 https://jinyung.github.io/publication/wong-2016-sciaenidotolith/ https://jinyung.github.io/publication/wong-2014-cypridid/ Wed, 01 Jan 2014 00:00:00 +0000 https://jinyung.github.io/publication/wong-2014-cypridid/ https://jinyung.github.io/gallery/ Mon, 01 Jan 0001 00:00:00 +0000 https://jinyung.github.io/gallery/ <h2 id="animals">Animals</h2> <div class="gallery"> <a data-fancybox="gallery-animals" href="https://jinyung.github.io/gallery/animals/amphitrite1.gif" data-caption="&lt;i&gt;Amphibalanus amphitrite&lt;/i&gt;"> <img data-src="https://jinyung.github.io/gallery/animals/amphitrite1_hufcbf73965dbca7e7c43e9bb764eea7bb_3996659_0x190_resize_lanczos_1.gif" class="lazyload" alt="" width="339" height="190"> </a> <a data-fancybox="gallery-animals" href="https://jinyung.github.io/gallery/animals/lepas1.gif" data-caption="&lt;i&gt;Lepas anatifera&lt;/i&gt;"> <img data-src="https://jinyung.github.io/gallery/animals/lepas1_hu394bf11133053e80f7b2ade4d05609b3_8477110_0x190_resize_lanczos_1.gif" class="lazyload" alt="" width="339" height="190"> </a> <a data-fancybox="gallery-animals" href="https://jinyung.github.io/gallery/animals/octolasmis1.gif" data-caption="&lt;i&gt;Octolasmis warwickii&lt;/i&gt; and &lt;i&gt;Chelonibia testudinaria&lt;/i&gt;"> <img data-src="https://jinyung.github.io/gallery/animals/octolasmis1_hu8627f5f78891e9acba895f697663c2c7_15189064_0x190_resize_lanczos_1.gif" class="lazyload" alt="" width="339" height="190"> </a> <a data-fancybox="gallery-animals" href="https://jinyung.github.io/gallery/animals/rhizo.gif" data-caption="Crab infested by parasitic Rhizocephalan barnacles"> <img data-src="https://jinyung.github.io/gallery/animals/rhizo_hu20cadf7fea0f20ff7ba92c520e79d8ec_7801467_0x190_resize_lanczos_1.gif" class="lazyload" alt="" width="341" height="190"> </a> </div>