Visualization for Discovery
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This document discusses antibiotic effectiveness against different bacterial species and tools for interactive data visualization. It includes: 1. Scatter plots showing antibiotic response of various bacteria to penicillin and neomycin. 2. Descriptions of the Trifacta Visual Profiler and Data Voyager tools which recommend visualizations by evaluating data properties and ranking visualization specifications. 3. Challenges of refining visualization recommendations at large data scales and avoiding statistical pitfalls.
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Visualization for Discovery
- 1. Jeffrey Heer @jeffrey_heer Univ. of Washington + Trifacta Visualization for DISCOVERY
- 2. Effectiveness of Penicillin, Neomycin & Streptomycin vs. Bacteria Species
- 5. Which antibiotic should one use?
- 6. Show data variation, not design variation. - Edward Tufte
- 7. Aerobacter aerogenes Brucella abortus Bacillus anthracis Diplococcus pneumoniae Escherichia coli Klebsiella pneumoniae Mycobacterium tuberculosis Proteus vulgaris Pseudomonas aeruginosa Salmonella typhosa Salmonella schottmuelleri Staphylococcus albus Staphylococcus aureus Streptococcus fecalis Streptococcus hemolyticus Streptococcus viridans 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Streptococcus Staphylococcus Salmonella Other Wainer & Lysen Am. Sci. 2009
- 8. Aerobacter aerogenes Brucella abortus Bacillus anthracis Diplococcus pneumoniae Escherichia coli Klebsiella pneumoniae Mycobacterium tuberculosis Proteus vulgaris Pseudomonas aeruginosa Salmonella typhosa Salmonella schottmuelleri Staphylococcus albus Staphylococcus aureus Streptococcus fecalis Streptococcus hemolyticus Streptococcus viridans 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Streptococcus Staphylococcus Salmonella Other Wainer & Lysen Am. Sci. 2009 What does antibiotic response reveal about the biology of bacteria?
- 9. Aerobacter aerogenes Brucella abortus Bacillus anthracis Diplococcus pneumoniae Escherichia coli Klebsiella pneumoniae Mycobacterium tuberculosis Proteus vulgaris Pseudomonas aeruginosa Salmonella typhosa Salmonella schottmuelleri Staphylococcus albus Staphylococcus aureus Streptococcus fecalis Streptococcus hemolyticus Streptococcus viridans 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Streptococcus Staphylococcus Salmonella Other Wainer & Lysen Am. Sci. 2009
- 10. Aerobacter aerogenes Brucella abortus Bacillus anthracis Diplococcus pneumoniae Escherichia coli Klebsiella pneumoniae Mycobacterium tuberculosis Proteus vulgaris Pseudomonas aeruginosa Salmonella typhosa Salmonella schottmuelleri Staphylococcus albus Staphylococcus aureus Streptococcus fecalis Streptococcus hemolyticus Streptococcus viridans 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Streptococcus Staphylococcus Salmonella Other Wainer & Lysen Am. Sci. 2009 ? ?
- 11. Aerobacter aerogenes Brucella abortus Bacillus anthracis Diplococcus pneumoniae Escherichia coli Klebsiella pneumoniae Mycobacterium tuberculosis Proteus vulgaris Pseudomonas aeruginosa Salmonella typhosa Salmonella schottmuelleri Staphylococcus albus Staphylococcus aureus Streptococcus fecalis Streptococcus hemolyticus Streptococcus viridans 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Streptococcus Staphylococcus Salmonella Other Wainer & Lysen Am. Sci. 2009 Not a streptococcus! Actually a streptococcus!
- 12. How might our tools spur new questions and prompt skepticism?
- 15. 0 10 20 30 40 Neomycin 0 200 400 600 800 Penicillin
- 16. 0.001 0.01 0.1 1 10 100 Log10(Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(Penicillin)
- 19. 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Aerobacter Brucella Bacillus Diplococcus Escherichia Klebsiella Mycobacterium Proteus Pseudomonas Salmonella Staphylococcus Streptococcus
- 20. 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Streptococcus Staphylococcus Salmonella Other
- 21. Aerobacter aerogenes Brucella abortus Bacillus anthracis Diplococcus pneumoniae Escherichia coli Klebsiella pneumoniae Mycobacterium tuberculosis Proteus vulgaris Pseudomonas aeruginosa Salmonella typhosa Salmonella schottmuelleri Staphylococcus albus Staphylococcus aureus Streptococcus fecalis Streptococcus hemolyticus Streptococcus viridans 0.0010.010.11101001,000 Log10(1 / Neomycin) 0.001 0.01 0.1 1 10 100 1,000 Log10(1/Penicillin) Genus Streptococcus Staphylococcus Salmonella Other
- 22. A Combinatorial Design Space
- 23. 1. Variable Selection A Combinatorial Design Space
- 24. 1. Variable Selection 2. Data Transformation A Combinatorial Design Space
- 25. 1. Variable Selection 2. Data Transformation 3. Visual Encoding Design A Combinatorial Design Space
- 26. 1. Variable Selection 2. Data Transformation 3. Visual Encoding Design —> Thousands of possible charts! A Combinatorial Design Space
- 27. How might we augment manual chart construction with interactive browsing of recommended visualizations?
- 29. ggplot(diamonds, aes(x=price, fill=cut)) + geom_bar(position="dodge")
- 31. 1. Trifacta Visual Profiler 2. Data Voyager (UW + Tableau)
- 32. 1. Trifacta Visual Profiler 2. Data Voyager (UW + Tableau)
- 42. 1. Trifacta Visual Profiler 2. Data Voyager (UW + Tableau)
- 44. User
- 46. Voyager Visualization Browser Compass Recommendation Engine Data Schema & Statistics User
- 47. Voyager Visualization Browser Compass Recommendation Engine Data Schema & Statistics User 1. Select data variables 2. Apply transformations 3. Pick visual encodings
- 48. Voyager Visualization Browser Compass Recommendation Engine Data Schema & Statistics User Constrain & rank choices by data type, statistics & perceptual principles.
- 49. Voyager Visualization Browser Data Schema & Statistics Ranked and Clustered Vega-lite Specifications User Compass Recommendation Engine
- 50. Voyager Visualization Browser Compass Recommendation Engine Vega-lite Compiler Vega-lite Specifications Ranked and Clustered Vega-lite Specifications User Data Schema & Statistics
- 51. Voyager Visualization Browser Compass Recommendation Engine Vega Renderer Vega-lite Compiler Vega-lite Specifications Vega Specifications Ranked and Clustered Vega-lite Specifications User Data Schema & Statistics
- 52. Voyager Visualization Browser Compass Recommendation Engine Vega Renderer Interactive Visualizations Vega-lite Specifications Vega Specifications Ranked and Clustered Vega-lite Specifications User Data Schema & Statistics Vega-lite Compiler
- 53. Voyager Visualization Browser Interactive Visualizations Compass Recommendation Engine Vega Renderer Interactive Visualizations Vega-lite Specifications Vega Specifications Ranked and Clustered Vega-lite Specifications User Data Schema & Statistics Vega-lite Compiler
- 54. Voyager Visualization Browser Interactive Visualizations User Selection Compass Recommendation Engine Vega Renderer Interactive Visualizations Vega-lite Specifications Vega Specifications User Selection, Data Schema & Statistics Ranked and Clustered Vega-lite Specifications User Vega-lite Compiler
- 55. Voyager Visualization Browser Interactive Visualizations User Selection Compass Recommendation Engine Vega Renderer Interactive Visualizations Vega-lite Specifications Vega Specifications User Selection, Data Schema & Statistics Ranked and Clustered Vega-lite Specifications User Improves data coverage! +3x variable sets shown +1.5x more interacted with Vega-lite Compiler
- 56. Refining visualization recommendation What to optimize? How to evaluate? Scaling interactive visualizations Large D harder than large N… Help avoid statistical pitfalls Recognize mix effects, convey uncertainty Ongoing Challenges
- 57. How might our tools spur new questions and prompt skepticism?
- 59. vega.github.io
- 60. Jeffrey Heer @jeffrey_heer Univ. of Washington + Trifacta Visualization for DISCOVERY