R Graph Catalog

http://lsi.ubc.ca/resources/omics-phenotyping-portal/#R_Graph_Catalog

Statistics Training and Online Resources

R Graph Catalog

http://shinyapps.stat.ubc.ca/r-graph-catalog/

Recommended by Stefanie Butland, LSI

The R Graph Catalog is a visual index of over 100 graphs from the excellent book "Creating More Effective Graphs" by Naomi Robbins. Click on a graph thumbnail and you'll see the figure AND all the code necessary to reproduce the figure exactly with ggplot2, the R package written by Hadley Wickham. This is a resource for people who want to make a good graph and kind of know what it should look like … but they could really use an example to get started!

You can get the code for ALL figures and the infrastructure that makes the app from this repository on GitHub:https://github.com/jennybc/r-graph-catalog

The R Graph Catalog is maintained by Dr Jennifer Bryan, UBC Department of Statistics, and the initial work was facilitated by an NSERC Undergraduate Student Research Award to Joanna Zhao.

JQuery UI

http://jqueryui.com/demos/

Embed image to HTML by encoding it in base64

http://www.base64-image.de

<img src="data:image/jpg;base64,/9j/4AAQSkZJRgABAQEAYABgAAD/4Q1hRXhpZgAATU0AKgAAAAgACgEOAAIAAAALAAAAhgEP">

Colorcombos Color Picker with HEX code

http://www.colorcombos.com/combomaker.html?design=squares-outlined&output_width=75&size_option=element&colors=FFDAA3,FFFFC2,D1E88D,A3C1DD,E68080&background_color=FFFFFF&show_hex_flag=Y

PDF to Text with OCR Ubuntu

$sudo apt-get install tesseract-ocr
$sudo apt-get install convert

$ convert -density 300 in.pdf out.png
$ tesseract out.png out
$ vi out.txt

For multiple files

for i in out-*.png ; do tesseract $i $i-txt; done

Fotowall - Ubuntu image canvas and collages

Fotowall

Photo collection creativity tool

FotoWall is a creative tool that allows you to layout your photos or pictures in a personal way.

You can add pictues, then resize, move, change colors, text, shadows, etc. to create your composition or collage.

The focus of this application is on simplicity.

https://apps.ubuntu.com/cat/applications/quantal/fotowall/

Andre Kushniruk - human-computer interaction in health care

http://www.uvic.ca/hsd/hinf/people/faculty/andre/index.php

Dr. Kushniruk conducts research in a number of areas including evaluation of the effects of technology, human-computer interaction in health care and other domains as well as cognitive science. His work is known internationally and he has published widely in the area of health informatics. He focuses on developing new methods for the evaluation of information technology and studying human-computer interaction in health care and he has been a key researcher on a number of national and international collaborative projects. 

• Research interests

• Evaluation of the use and usability of information systems
• Design and evaluation methodologies
• e-Health and telemedicine
• Consumer informatics
• Cognitive aspects of decision support systems
• Data mining in health informatics
• Computerized patient record systems
• Intelligent information filtering
• Usability engineering
• Knowledge representation
• Design of health care user interfaces and human-computer interaction in complex domains

http://web.uvic.ca/calendar2013/GRAD/GPROGS/HISc/PrRe.html

Health Information Science, 2-year program

Javascript visualization libraries

http://www.elisa-dbi.co.uk/blog/38-tools-for-beautiful-data-visualisations/

Javascript Libraries

• Arbor.js - Node-link
• Cubism.js - Time series
• D3.js - Matrix, node-link, circular hierarchy, hive, icicle/partition, radial hierarchy, treemap, tree, hyperbolic tree, radial tree, Marimekko charts, parallel set, heat map, bubble chart, word cloud
• Dance.js - Interactive diagrams
• Envision.js - (HTML5 visualisations) Time series, fractals
• Flot – Interactive charts
• Highchart – Interactive charts
• Google Chart Tools  / Google Fusion Tables - Maps, pie chart, bar chart, radial chart, tree map, scatter plots, bubble charts, line chart, step chart, area chart, boxplot, trees, tree maps, node-link
• Infovis - Area chart, pie chart, bar chart, radial hierarchy, treemap, Marimekko chart, tree, node-link, radial chart, radial tree, hyperbolic tree
• Leaflet.js - Maps
• Modest Maps.js - Maps
• Processing.js  – Interactive diagrams
• Raphäel.js – Line chart, pie chart, time series; SVG generated charts.
• Rickshaw - Time series
• Sigma.js - Node-link

JavaScript Native Interface

https://developers.google.com/web-toolkit/doc/latest/DevGuideCodingBasicsJSNI

Coding Basics - JavaScript Native Interface (JSNI)

Often, you will need to integrate GWT with existing handwritten JavaScript or with a third-party JavaScript library. Occasionally you may need to access low-level browser functionality not exposed by the GWT class API's. The JavaScript Native Interface (JSNI) feature of GWT can solve both of these problems by allowing you to integrate JavaScript directly into your application's Java source code.

How to make a stickman movie

http://www.youtube.com/watch?v=USNImOiYAck

List of animation, visualization tools for Ubuntu
http://ubuntuforums.org/showthread.php?t=293798
Synfig
http://www.youtube.com/watch?v=WUxn9jqFJrg
http://www.youtube.com/watch?v=4OTZcY2Uj1k
http://www.youtube.com/watch?v=r-FSDouTUkk

Elizabeth Mynatt

Beth Mynatt is the Executive Director of the Institute for People and Technology (IPaT), a College of Computing Professor, and the Director of the Everyday Computing Lab. Themes in her research include supporting informal collaboration and awareness in office environments, enabling creative work and visual communication, and augmenting social processes for managing personal information. She is also one of the principal researchers in the Aware Home Research Initiative; investigating the design of future home technologies, especially those that enable older adults to continue living independently as opposed to moving to an institutional care setting.

Combining Computing, Design and Healthcare: Charting an Agenda for Personal Health Informatics

Elizabeth Mynatt

Georgia Tech

https://www.cs.ubc.ca/event/2013/01/combining-computing-design-and-healthcare-dls-talk-elizabeth-mynatt-georgia-tech

Healthcare for chronic disease is the dominant cost for many healthcare systems, now and for the foreseeable future. The unique capabilities of pervasive technologies have the potential to transform healthcare practices by shifting care from acute to home settings, by enabling continuous data capture and analysis, by creating a network of communication and collaboration channels, and by helping individuals engage in their own care.  In the end, the emphasis is changed from healthcare and chronic disease to a focus on health and wellness.

In this talk, I will draw from a number of research projects that combine computing research, human-centered design, and health management theory to create promising approaches for promoting wellness, supporting behavior change and delivering improved health outcomes.

Visual Data Mining of Biological Networks: One Size Does Not Fit All

http://www.ploscompbiol.org/article/info:doi/10.1371/journal.pcbi.1002833

High-throughput technologies produce massive amounts of data. However, individual methods yield data specific to the technique used and biological setup. The integration of such diverse data is necessary for the qualitative analysis of information relevant to hypotheses or discoveries. It is often useful to integrate these datasets using pathways and protein interaction networks to get a broader view of the experiment. The resulting network needs to be able to focus on either the large-scale picture or on the more detailed small-scale subsets, depending on the research question and goals. In this tutorial, we illustrate a workflow useful to integrate, analyze, and visualize data from different sources, and highlight important features of tools to support such analyses.

Web 3D

 jQuery, 

http://jquery.com/



Three.js,  (Javascript 3D Library)

https://github.com/mrdoob/three.js/



 OpenCTM (Compression of 3D Triangle Meshes).

 http://openctm.sourceforge.net/



http://gallantlab.org/semanticmovies/

IIPImage

http://iipimage.sourceforge.net/ 
 
IIPImage is an advanced high-performance feature-rich image server system for web-based streamed viewing and zooming of ultra high-resolution images. It is designed to be fast and bandwidth-efficient with low processor and memory requirements. The system can comfortably handle gigapixel size images as well as advanced image features such as both 8 and 16 bit depths, CIELAB colorimetric images and scientific imagery such as multispectral images.

BioVenn - Venn diagrams

BioVenn - a web application for the comparison and visualization of biological lists using area-proportional Venn diagrams

http://www.cmbi.ru.nl/cdd/biovenn/

Points of view: Pencil and paper

http://www.nature.com/nmeth/journal/v9/n11/full/nmeth.2223.html?WT.ec_id=NMETH-201211

Creating pictures is integral to scientific thinking. In the visualization process, putting pencil to paper is an essential act of inward reflection and outward expression.

Visualization is vital to the scientific process. Relying on the powerful connection between thinking, seeing and understanding, exploratory drawing is critical for creating frameworks for knowledge.

Convert PDF to PS

tiff2pdf
tiff2ps

pdf2ps
ps2pdf

or use Gimp

http://ubuntuforums.org/showthread.php?t=1478710

yED - Graph Editor

http://www.yworks.com/en/products_yed_about.html

Workflow visualization tool.

Free online brainstorming diagraming tool

https://bubbl.us/

brainstorming and workflow made simple

Picasa - Google photo editing

http://www.ubuntugeek.com/howto-install-picasa-3-5-in-ubuntu.html

Picasa is a software application for organizing and editing digital photos, originally created by Idealab and owned by Google since 2004.”Picasa” is a blend of the name of Spanish painter Pablo Picasso, the phrase mi casa for “my house” and “pic” for pictures (personalized art).