SMHS SciVisualization SOCR Excel R Charts - Revision history

Pineaumi: /* Heatmaps */

2016-05-23T17:53:03Z

‎Heatmaps

2016-05-23T13:30:49Z

‎Hyperbolic Visualization

2016-05-23T13:30:23Z

‎Examples of powerful R interactive visualization packages

2016-05-23T13:29:51Z

2016-05-19T13:59:42Z

‎Trees and Graphs

2016-05-19T13:58:53Z

‎Hyperbolic Visualization

2016-05-19T13:58:33Z

‎Hyperbolic Visualization

2016-05-19T13:58:17Z

‎Hyperbolic Visualization

2016-05-19T13:57:44Z

‎Correlation Plots

2016-05-19T13:57:10Z

‎Heatmaps

@@ Line 435: / Line 435: @@
 <center>[[Image:SMHS_SciVisualization26.png|500px]] </center>
-  # Alternatively, we can use the R package gplots
+  # Alternatively, we can use the R package '''gplots'''
   install.packages("gplots")
   library(gplots)

@@ Line 460: / Line 460: @@
 *Tools:
 ** Java/Jar applet: http://socr.umich.edu/html/navigators/HW/jars/SOCR_HW_Viewer.jar
 ** JavaScript: http://socr.umich.edu/html/navigators/D3/SOCR_D3_Viewer.html (JSON)
 *Data Format
 ** XML data: http://socr.umich.edu/html/navigators/HW/SOCR_HyperTree.xml
 ** JSON data: http://socr.umich.edu/html/navigators/D3/xml/SOCR_HyperTree.json
 *D3 Visualization
 ** E:\Ivo.dir\Research\UMichigan\Education_Teaching_Curricula\2015_2016\HS_853_Fall_2015\Modules_docx\Tools\TreeViewer_JS
 ** treeJS.json
 ** flareD3.json

@@ Line 146: / Line 146: @@
 *<b>HTMLWidgets</b>
 ** <b>leaflet</b> – library for creating dynamic maps, supports panning and zooming, annotations, markers, polygons, etc. http://www.htmlwidgets.org/showcase_leaflet.html
 ** <b>dygraphs</b> – provides mechanism for charting time-series data, supports interactive navigation features including series/point highlighting, zooming, and panning, http://www.htmlwidgets.org/showcase_dygraphs.html
 ** <b>networkD3</b> – library for creating D3 network graphs including force directed networks, Sankey diagrams, and Reingold-Tilford tree networks, http://www.htmlwidgets.org/showcase_networkD3.html
 ** <b>DataTables</b> – displays R matrices or data frames as interactive HTML tables that support filtering, pagination, and sorting, http://www.htmlwidgets.org/showcase_datatables.html
 ** <b>Rthreejs</b> – features 3D scatterplots and globes based on WebGL, http://www.htmlwidgets.org/showcase_threejs.html

@@ Line 575: / Line 575: @@
 You can now cut the tree into branches. You can split the tree into 2 groups, by setting the number of cuts with the k=2 parameter, or by specifying height to cut the tree at (?cutree):
- k	an integer scalar or vector with the desired number of groups
+k- an integer scalar or vector with the desired number of groups
- h	numeric scalar or vector with heights where the tree should be cut
   cutree(hc, k = 2)

@@ Line 483: / Line 483: @@
 <blockquote>o	flareD3.json</blockquote>
-<center>[[Image:SMHS_SciVisualization29.png|300px]] </center>
+<center>[[Image:SMHS_SciVisualization29.png|400px]] </center>
-<center>[[Image:SMHS_SciVisualization30.png|300px]] </center>
+<center>[[Image:SMHS_SciVisualization30.png|400px]] </center>
 •	URL: https://github.com/mbostock/d3/wiki/Gallery
@@ Line 491: / Line 491: @@
 •	Source code: https://github.com/mbostock/d3
-<center>[[Image:SMHS_SciVisualization31.png|500px]] </center>
+<center>[[Image:SMHS_SciVisualization31.png|400px]] </center>
 ===Motion Charts===

@@ Line 479: / Line 479: @@
 <blockquote>o	E:\Ivo.dir\Research\UMichigan\Education_Teaching_Curricula\2015_2016\HS_853_Fall_2015\Modules_docx\Tools\TreeViewer_JS</blockquote>
-<blockquote>	treeJS.json</blockquote>
+<blockquote>o	treeJS.json</blockquote>
-<blockquote>	flareD3.json</blockquote>
+<blockquote>o	flareD3.json</blockquote>
 <center>[[Image:SMHS_SciVisualization29.png|500px]] </center>

@@ Line 451: / Line 451: @@
 ===Correlation Plots===
-  The <b>corrplot</b> package is a graphical display of a correlation matrix, and confidence intervals, with some tools for matrix reordering. There are seven visualization methods (parameter method) in corrplot package, named   "circle", "square", "ellipse", "number", "shade", "color", "pie".
+  The <b>corrplot</b> package is a graphical display of a correlation matrix and confidence intervals, with some tools for matrix reordering. There are seven visualization methods (parameter method) in corrplot package, named   "circle", "square", "ellipse", "number", "shade", "color", "pie".
   # install.packages("corrplot")
   library(corrplot)

@@ Line 405: / Line 405: @@
 ===Heatmaps===
-  # Generating Dendogram Association Heatmap Plot (Genotype vs. Imaging phenotype
+  # Generating Dendogram Association Heatmap Plot (Genotype vs. Imaging phenotype)
   # http://stat.ethz.ch/R-manual/R-patched/library/stats/html/heatmap.html
   # http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4005931/