======DILS Seminar====== =====Winter Semester 2023/24===== **Tuesdays, 14:15, [[https://ekvv.uni-bielefeld.de/kvv_publ/publ/vd?id=423649788|ekvv]]** \\ **Hybrid: U10-116/146 and online via Zoom.** \\ This doctoral research seminar of the DILS graduate school is dedicated to PhD students of the Bielefeld Institute for Bioinformatics Infrastructure (BIBI) and friends. Guests are always welcome. \\ The topics presented are determined by the research interests of the graduate school. The main aim of this seminar is to keep the participants informed on the current developments and to critically discuss recent developments. \\ This semester, we address the challenge of producing good scientific visualizations -- design principles, color design, technical realization. \\ ^ Date ^ Topic ^ | 10.10. | Organization of the seminar | | 17.10. | Collecting, discussing sources and topics | | 24.10. | {{https://www.nature.com/nmeth/journal/v9/n12/full/nmeth.2258.html|Visualizing biological data}}, {{https://www.nature.com/nmeth/journal/v8/n5/full/nmeth0511-365.html|The overview figure}}, {{https://www.nature.com/nmeth/journal/v8/n12/full/nmeth.1783.html|The design process}}, {{https://www.nature.com/nmeth/journal/v8/n10/full/nmeth.1711.html|Layout}}, {{https://www.nature.com/nmeth/journal/v8/n1/full/nmeth0111-5.html|Negative space}} | | 31.10. | Gestalt principles (Parts {{https://www.nature.com/nmeth/journal/v7/n11/full/nmeth1110-863.html|1}} & {{https://www.nature.com/nmeth/journal/v7/n12/full/nmeth1210-941.html|2}}), {{https://www.nature.com/nmeth/journal/v8/n11/full/nmeth.1762.html|Salience to relevance}}, {{https://www.nature.com/nmeth/journal/v10/n5/full/nmeth.2444.html|Elements of visual style}}, {{https://www.nature.com/nmeth/journal/v10/n8/full/nmeth.2571.html|Storytelling}} | | 07.11. | Using color: {{https://www.nature.com/nmeth/journal/v7/n8/full/nmeth0810-573.html|Color Coding}}, {{https://www.nature.com/nmeth/journal/v8/n6/full/nmeth.1618.html|Color blindness}}, {{https://www.nature.com/nmeth/journal/v8/n7/full/nmeth.1642.html|Avoiding color}}, {{https://www.nature.com/nmeth/journal/v9/n8/full/nmeth.2134.html|Mapping quantitative data to color}}, {{https://www.nature.com/nmeth/journal/v9/n3/full/nmeth.1902.html|Heat maps}} | | 14.11. | Supervision agreement (see email) | | 21.11. | PhD defense rehearsal Hanna in **G2-104** | | 28.11. | Skipped for wants of participants | | 05.12. | **12:15 in G2-104**: Hanna's Disputation | | 12.12. | Elements of a figure: {{https://www.nature.com/nmeth/journal/v8/n4/full/nmeth0411-277.html|Typography}}, {{https://www.nature.com/nmeth/journal/v10/n3/full/nmeth.2337.html|Axes, ticks and grids}}, {{https://www.nature.com/nmeth/journal/v10/n4/full/nmeth.2405.html|Labels and callouts}}, {{https://www.nature.com/nmeth/journal/v10/n6/full/nmeth.2490.html|Plotting symbols}}, {{https://www.nature.com/nmeth/journal/v8/n9/full/nmeth.1676.html|Arrows}} | | 19.12. | Plot types: {{https://www.nature.com/nmeth/journal/v11/n2/full/nmeth.2807.html|Bar charts and box plots}}, {{https://www.nature.com/nmeth/journal/v11/n8/full/nmeth.3033.html|Sets and intersections}}, {{https://www.nature.com/nmeth/journal/v9/n3/full/nmeth.1902.html|Heat maps}}, {{https://www.nature.com/nmeth/journal/v12/n2/full/nmeth.3262.html|Temporal data}}, {{https://www.nature.com/nmeth/journal/v12/n7/full/nmeth.3451.html|Unentangling complex plots}}, {{https://www.nature.com/nmeth/journal/v13/n1/full/nmeth.3699.html|Pathways}}, {{https://www.nature.com/nmeth/journal/v13/n3/full/nmeth.3777.html|Neural circuit diagrams}} | | -- X-mas break -- || | 09.01. | Improving figure clarity: {{https://www.nature.com/nmeth/journal/v8/n8/full/nmeth.1660.html|Simplify to clarify}}, {{https://www.nature.com/nmeth/journal/v7/n9/full/nmeth0910-665.html|Design of data figures}}, {{https://www.nature.com/nmeth/journal/v7/n10/full/nmeth1010-773.html|Salience}}, {{https://www.nature.com/nmeth/journal/v8/n2/full/nmeth0211-101.html|Points of review (Part 1)}}, {{https://www.nature.com/nmeth/journal/v8/n3/full/nmeth0311-189.html|Points of review (Part 2)}} | | Homework | (i) read relevant remaining parts of [[https://blogs.nature.com/methagora/2013/07/data-visualization-points-of-view.html|"Points of View"]] \\ (ii) prepare some real world data to practice | | 16.01. | provide and introduce "your" data (homework (ii)) \\ [[https://uni-bielefeld.sciebo.de/s/qsYROLJwnPLUCuU|Link to share all our data]] (password: &weichkaese2000) | | 23.01. | hands-on session I | | 30.01. | hands-on session II | ===== Links ===== ===Data visualization: A view of every Points of View column=== As of July 30, 2013 Nature Methods has published [[https://blogs.nature.com/methagora/2013/07/data-visualization-points-of-view.html|35 Points of View columns]] written by Bang Wong, Martin Krzywinski and their co-authors: Nils Gehlenborg, Cydney Nielsen, Noam Shoresh, Rikke Schmidt Kjærgaard, Erica Savig and Alberto Cairo. ===How to Design an Award-Winning Scientific Conference Poster=== [[https://www.animateyour.science/post/how-to-design-an-award-winning-conference-poster|Link]] ===Showcases=== A [[https://www.informationisbeautifulawards.com/showcase?award=2023&type=awards|huge collection of examples on data visualizations]] is provided by the "Data Visualization Society", which organizes the "Visualization in Beautiful" award. ===== Tool, packages, libraries for scientific visualzation ===== * Example on color context: {{https://ibb.co/hLf7D9b}} * If you have more than 8 you might be able to generate a Color Palette with this: {{https://mokole.com/palette.html}} * Design accessible color palettes: {{https://color.adobe.com/de/create/color-accessibility}} * Scroll down for diverging palettes: {{https://seaborn.pydata.org/tutorial/color_palettes.html}} * Color palettes for Phython: {{https://plotly.com/python/colorscales/}} * NASA color usage research lab: {{https://colorusage.arc.nasa.gov/ColorTool.php}} * {{ https://docs.gimp.org/2.10/en/gimp-display-filter-dialog.html | Color blindness filters in gimp}}