Force-directed graph drawing

Force-directed graph drawing
https://en.wikipedia.org/wiki/Force-directed_graph_drawing

Graphviz
http://graphviz.org
software that implements a multilevel force-directed layout algorithm (among many others) capable of handling very large graphs.

LearnDiscovery, mobile software for iOS that visualizes the mindmap of English Wikipedia, computed as a weighted graph. It includes force-directed layouts as one of the built-in methods for displaying and accessing a connected-graph of topics.

Open source graph visualization
9th February, 2018
https://cambridge-intelligence.com/open-source-graph-visualization-a-completely-unbiased-review-of-your-options
graph databases
IBM graph
HTML5 Canvas
JanusGraph
Neo4j graph database
OrientDB graph database

Thinking with External Representations

4. Thinking with External Representations
Autor: David Kirsh
Verlag: Springer International Publishing
Erschienen in: Cognition Beyond the Brain, 2017
https://www.springerprofessional.de/thinking-with-external-representations/12181368

Why do people create extra representations to help them make sense of situations, diagrams, illustrations, instructions and problems? The obvious explanation—external representations save internal memory and computation —is only part of the story. I discuss seven ways external representations enhance cognitive power: …

for more on writing therapy:
https://franzcalvo.wordpress.com/2018/05/12/marcus-aurelius

high-dimensional data

The properties of high-dimensional data spaces: implications for exploring gene and protein expression data
Robert Clarke, Habtom W. Ressom, Antai Wang, Jianhua Xuan, Minetta C. Liu, Edmund A. Gehan & Yue Wang
Nature Reviews Cancer 8, 37-49 (January 2008)
http://www.nature.com/nrc/journal/v8/n1/full/nrc2294.html

October 10, 2014
https://www.quora.com/Whats-the-best-way-to-visualize-high-dimensional-data

https://franzcalvo.wordpress.com/2015/03/12/deep-reinforcement-learning

https://franzcalvo.wordpress.com/2014/01/03/optogenetics-for-analyzing-and-engineering-neural-circuits

https://franzcalvo.wordpress.com/2013/08/20/multidimensional-real-time-data-analysis-for-apnoea-of-prematurity

Visualizing Biological Data (VIZBI)

The visualizations transforming biology
Inventive graphic design and abstract models are helping researchers to make sense of a glut of data.
Ewen Callaway
04 July 2016
http://www.nature.com/news/the-visualizations-transforming-biology-1.20201

Some of the visualizations that are currently exciting biologists were presented at a conference at the European Molecular Biology Laboratory in Heidelberg, Germany, in March. Called Visualizing Biological Data (VIZBI), the meeting was co-organized by Seán O’Donoghue, a bioinformatician at the Garvan Institute of Medical Research in Sydney, Australia. The gathering attracts an eclectic mix of lab researchers, computer scientists and designers and is now in its seventh year.

D3


Visualizing your data on the web using D3
http://isakiko.github.io/D3-visualising-data

indexed in:
http://software-carpentry.org/lessons
The Software Carpentry Course teaches basic skills for scientific computing, running bootcamps and providing open-access teaching materials.
[listed in: https://www.python.org/about/apps]

related:
http://stackoverflow.com/questions/12977517/python-equivalent-of-d3-js

D3 and CoffeeScript (1:49)
O’Reilly Media. October 2014
https://player.oreilly.com/videos/9781491907764

Graph Databases [BOOK]
2013
http://shop.oreilly.com/product/0636920028246.do
?free http://neo4j.com/book-graph-databases

Amazing video journeys
July 2018
https://www.spectroom.com