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| − | <font size="5">'''Visualising and Analysing Multidimensional Data '''</font> | + | <font size="5">'''Programming Data Visualisation in R'''</font> |
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| | =Content= | | =Content= |
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| − | * Introduction to High-dimensional Data | + | * R, RStudio and RMarkdown 101 |
| − | * Bivariate Matrix | + | * Introducing The Grammar of Graphics |
| − | ** Trellis | + | * ggplot2, The Layered Grammar of Graphics |
| − | ** Correlation Matrix | + | ** The Essential Grammatical Elements in ggplot2 |
| − | ** Correlogram | + | * Designing Analytical Graphics with ggplot2 |
| − | * Multivariate Data Visualisation | + | * Creating Interactive Graphics with plotly R |
| − | ** Ternary Plot
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| − | ** Glyphs or Star Plot
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| − | ** Heatmap
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| − | ** Parallel Coordinate Plot
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| − | * Space-constrained visualization of hierarchies
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| − | ** Treemaps
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| − | ** Sunburst diagram
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| − | =Readings= | + | = Readings = |
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| | ==Core Readings== | | ==Core Readings== |
| | + | * [https://vita.had.co.nz/papers/layered-grammar.html A Layered Grammar of Graphics] |
| | + | * [https://r4ds.had.co.nz/data-visualisation.html Chapter 3 Data Visualization], [https://r4ds.had.co.nz/exploratory-data-analysis.html Chapter 7 Exploratory Data Analysis] and [https://r4ds.had.co.nz/graphics-for-communication.html Chapter 28 Graphics for communication] of '''R for Data Science'''. |
| | + | * ggplot2 [https://ggplot2.tidyverse.org//] |
| | + | * ggplot2 – The R graph Gallery [http://www.r-graph-gallery.com/portfolio/ggplot2-package/] |
| | + | * ggplot2 - A Short Tutorial [http://r-statistics.co/ggplot2-Tutorial-With-R.html] |
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| − | '''Multivariate Methods'''
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| − | * [http://www.perceptualedge.com/articles/b-eye/visual_multivariate_analysis.pdf An Introduction to Visual Multivariate Analysis]
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| − | * [https://search-proquest-com.libproxy.smu.edu.sg/docview/228501277?rfr_id=info%3Axri%2Fsid%3Aprimo Corrgrams: Exploratory Displays for Correlation Matrices]
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| − | * [https://en.wikipedia.org/wiki/Ternary_plot Ternary Plot]
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| − | * [https://link-springer-com.libproxy.smu.edu.sg/content/pdf/10.1007%2F978-3-540-33037-0_8.pdf Multivariate Data Glyphs]
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| − | * [https://link-springer-com.libproxy.smu.edu.sg/content/pdf/10.1007%2F978-3-540-33037-0_25.pdf Parallel Coordinates]
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| − | * [http://en.wikipedia.org/wiki/Heat_map Wikipedia: Heatmap]
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| − | '''Treemaps'''
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| − | * [http://www.cs.umd.edu/hcil/treemap-history Shneiderman, Ben (2008) Treemaps for space-constrained visualization of hierarchies] (http://www.cs.umd.edu/hcil/treemap-history/)
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| − | * [http://www.cs.umd.edu/hcil/treemap/FLEXIBLE-HIERARCHY-FINAL.pdf Extending the Utility of Treemaps with Flexible Hierarchy]
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| | | | |
| | + | ==Additional Readings== |
| | | | |
| − | ==Optional Readings== | + | ===Book on ggplot2=== |
| | + | * Hadley Wickham, Danielle Navarro, and Thomas Lin Pedersen (2020) [https://ggplot2-book.org/index.html ggplot2: Elegant Graphics for Data Analysis] (3rd Edition, online version). |
| | + | * Kieran Healy (2019) [https://socviz.co/ Data Visualization: A practical introduction]. This is the online version. |
| | + | * Aravind Hebbali (2020) [https://viz-ggplot2.rsquaredacademy.com/index.html Data Visualization with ggplot2] |
| | + | * Winston Chang (2020) [https://r-graphics.org/ R Graphics Cookbook] (2nd edition, online version) |
| | + | * Rob Kabacoff (2020) [https://rkabacoff.github.io/datavis/ Data Visualization with R] |
| | + | * [https://bookdown.org/tpemartin/minicourse_ggplot2/ ggplot2 介紹] |
| | + | * Zach Bogart & Joyce Robbins (2020) [https://edav.info/ Exploratory Data Analysis & Visualization] |
| | + | * [https://bbc.github.io/rcookbook/ BBC Visual and Data Journalism cookbook for R graphics] |
| | | | |
| − | '''Multivariate Methods'''
| + | ===Book on plotly R=== |
| − | * [http://junkcharts.typepad.com/junk_charts/2010/06/the-scatterplot-matrix-a-great-tool.html The scatter-plot matrix: a great tool] | + | * [https://plot.ly/r/ Plotly R Open Source Graphing Library] |
| − | * [https://search-proquest-com.libproxy.smu.edu.sg/docview/1750838449?rfr_id=info%3Axri%2Fsid%3Aprimo A Graphical Display of Large Correlation Matrices] | + | * [https://plotly-r.com/index.html Interactive web-based data visualization with R, plotly, and shiny] |
| − | * [https://www.sciencedirect.com/topics/engineering/ternary-diagram Ternary Diagram]
| + | * [https://www.r-graph-gallery.com/index.html The R Graph Gallery] |
| − | * [http://csmgeo.csm.jmu.edu/geollab/fichter/Sedrx/readternary.html Reading a Ternary Diagram]
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| − | * [http://www.ifs.tuwien.ac.at/~silvia/wien/vu-infovis/articles/Inselberg-InfoVis97.pdf Multidimensional Detective] | |
| − | * [https://eagereyes.org/techniques/parallel-coordinates Parallel Coordinates]
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| − | * [http://www.perceptualedge.com/articles/b-eye/parallel_coordinates.pdf Multivariate Analysis Using Parallel Coordinates]
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| | | | |
| − | '''Treemaps'''
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| − | ** [http://eagereyes.org/Techniques/Treemaps.html Treemaps]
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| − | ** [http://www.b-eye-network.com/view/2673 Discovering Business Intelligence Using Treemap Visualization]
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| − | ** [http://www.juiceanalytics.com/writing/10-lessons-treemap-design/ 10 Lessons in Treemap Design]
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| − | ** [http://delivery.acm.org.libproxy.smu.edu.sg/10.1145/580000/571649/p833-b_bederson.pdf?ip=202.161.43.77&id=571649&acc=ACTIVE%20SERVICE&key=FF6731C4D3E3CFFF%2E39D185EE56A58666%2E4D4702B0C3E38B35%2E4D4702B0C3E38B35&__acm__=1538033167_4a6787aed9b15196b9e585b3af4b7031 Bederson, Benjamin B.; Shneiderman, Ben; Wattenberg, Martin (2002). "Ordered and quantum treemaps: Making effective use of 2D space to display hierarchies". ACM Transactions on Graphics. 21 (4): 833.]
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| − | ** [http://www.win.tue.nl/~vanwijk/stm.pdf Bruls, Mark; Huizing, Kees; van Wijk, Jarke J. (2000). "Squarified treemaps". In de Leeuw, W.; van Liere, R. Data Visualization 2000: Proc. Joint Eurographics and IEEE TCVG Symp. on Visualization]
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| − | ** [http://www.juiceanalytics.com/writing/us-economic-census-treemap/ US Economic Census Treemap]
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| − | ** [https://ac-els-cdn-com.libproxy.smu.edu.sg/S0740624X11001055/1-s2.0-S0740624X11001055-main.pdf?_tid=5f3e825d-c9d0-414f-b1d2-3ffbe8e115d1&acdnat=1538033558_64b0c1431092fec2ea12cc5e7ba8e77b TreeCovery: Coordinated dual treemap visualization for exploring the Recovery Act]
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| − | ** [http://www.juiceanalytics.com/writing/juices-stimulus-bill-explorer/ Juice's Stimulus Bill Explorer]
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| − | ** [http://www.cc.gatech.edu/gvu/ii/fundexplorer/ Fundexplorer]
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| − | ** [http://www.smartmoney.com/map-of-the-market/ Map of the Market]
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| − | ** [http://www.hivegroup.com/gallery/index.html The HIVE Group]
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| − | ** [http://www.nytimes.com/imagepages/2007/02/25/business/20070225_CHRYSLER_GRAPHIC.html Truck Sales Slip, Tripping Up Chrysler]
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| − | ** [http://newsmap.jp/ Newsmap]
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| − | ** [http://www.nytimes.com/interactive/2010/02/01/us/budget.html Obama’s 2011 Budget Proposal: How It’s Spent]
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| | | | |
| − | =R Packages= | + | = DataCamp Courses = |
| − | ==Correlation Matrix==
| + | * Introduction to Data Visualization with ggplot2 |
| − | * [https://ggobi.github.io/ggally/#ggallyggscatmat ggscatmat] and [https://ggobi.github.io/ggally/#ggallyggpairs ggpairs] of [https://ggobi.github.io/ggally/index.html GGally] | + | * Intermedia Data Visualization with ggplot2 |
| − | * [https://cran.r-project.org/web/packages/corrplot/index.html corrplot]. A graphical display of a correlation matrix or general matrix. It also contains some algorithms to do matrix reordering. In addition, corrplot is good at details, including choosing color, text labels, color labels, layout, etc.
| + | * Interactive Data Visualization with plotly in R |
| − | * [https://cran.r-project.org/web/packages/corrgram/index.html corrgram] calculates correlation of variables and displays the results graphically. Included panel functions can display points, shading, ellipses, and correlation values with confidence intervals.
| + | * Intermediate Interactive Data Visualization with plotly in R |
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| − | ==Heatmap==
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| − | | |
| − | '''Static heatmap'''
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| − | * [https://www.rdocumentation.org/packages/stats/versions/3.6.0/topics/heatmap heatmap()] of R stats package. It draws a simple heatmap.
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| − | * [https://www.rdocumentation.org/packages/gplots/versions/3.0.1.1/topics/heatmap.2 heatmap.2()] of **gplots** R package. It draws an enhanced heatmap compared to the R base function.
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| − | * [https://www.rdocumentation.org/packages/pheatmap/versions/1.0.12/topics/pheatmap pheatmap()] of [https://www.rdocumentation.org/packages/pheatmap **pheatmap**] R package. **pheatmap** package also known as Pretty Heatmap. The package provides functions to draws pretty heatmaps and provides more control to change the appearance of heatmaps.
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| − | * [https://bioconductor.org/packages/release/bioc/html/ComplexHeatmap.html **ComplexHeatmap**] package of R/Bioconductor package. The package draws, annotates and arranges complex heatmaps (very useful for genomic data analysis). The full reference guide of the package is available [here](https://jokergoo.github.io/ComplexHeatmap-reference/book/).
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| − | * [https://cran.r-project.org/web/packages/superheat/ **superheat**] package: A Graphical Tool for Exploring Complex Datasets Using Heatmaps. A system for generating extendable and customizable heatmaps for exploring complex datasets, including big data and data with multiple data types. The full reference guide of the package is available [https://rlbarter.github.io/superheat/ here]. | |
| − | | |
| − | '''Interactive Heatmap'''
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| − | * [https://cran.r-project.org/web/packages/heatmaply/index.html heatmaply:] Make Interactive Cluster Heat Maps Using 'plotly' | |
| − | * [https://cran.r-project.org/web/packages/d3heatmap/index.html d3heatmap d3heatmap:] Make Interactive Heat Maps Using 'htmlwidgets' and 'D3.js.
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| − | * [https://cran.r-project.org/web/packages/iheatmapr/index.html iheatmapr:] Make complex, interactive heatmaps. Detail information are available at [https://docs.ropensci.org/iheatmapr/ here].
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| − | ==Treemaps==
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| − | * [https://cran.r-project.org/web/packages/treemap/ Treemap Package]
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| − | * [https://rpubs.com/brandonkopp/creating-a-treemap-in-r Creating a Treemap in R]
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| − | * [https://cran.r-project.org/web/packages/treemap/vignettes/treemap-color_mapping.html treemap: mapping to color palettes]
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| − | * [https://r-posts.com/simple-steps-to-create-treemap-in-r/ Simple Steps to Create Treemap in R] | |
| − | * [https://cran.r-project.org/web/packages/treemapify/index.html treemapify: Draw Treemaps in 'ggplot2']
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| − | * [https://cran.r-project.org/web/packages/treemapify/vignettes/introduction-to-treemapify.html Introduction to treemapify]
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| − | * [https://datascience-enthusiast.com/R/R_shiny_Tableau_treemap.html Interactive visualization with R-Shiny versus with Tableau: Treemaps]
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| − | ==Sunburst Diagram==
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| − | * [https://cran.r-project.org/web/packages/sunburstR/ sunburstR]
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| − | * [https://cran.r-project.org/web/packages/sunburstR/vignettes/sunburst-2-0-0.html Sunburst 2.0.0]
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| − | * [http://timelyportfolio.github.io/sunburstR/example_baseball.html Visualize Baseball with sunburstR]
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| − | * [https://medium.com/optima-blog/create-basic-sunburst-graphs-with-ggplot2-7d7484d92c61 Create Basic Sunburst Graphs with ggplot2]
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ISSS608 Visual Analytics and Applications
