background preloader

Cytoscape: An Open Source Platform for Complex Network Analysis and Visualization

Cytoscape: An Open Source Platform for Complex Network Analysis and Visualization
NRNB and Cytoscape Introduction to the National Resource for Network Biology How to Cite Cytoscape Cytoscape project needs your support! Please cite either of the following papers when you use Cytoscape in your publications, which is very important to sustain our federal funding. Saito R, Smoot ME, Ono K, Ruscheinski J, Wang PL, Lotia S, Pico AR, Bader GD, Ideker T.

http://www.cytoscape.org/

Related:  Data-driven history / DigHumData

Quarterly Food-at-Home Price Database The Quarterly Food-at-Home Price Database (QFAHPD) provides food price data to support research on the economic determinants of food consumption, diet quality, and health outcomes. There are two versions of the database--please read the complete documentation before downloading the data. Version 1 of the Quarterly Food-at-Home Price Database (QFAHPD-1) contains prices for 52 food groups based on both UPC-coded and random-weight food purchases. Quarterly prices are available for: Venn Templates and Venn Diagram Software - Free and no download required with Gliffy Online A Venn diagram is a simple way to represent the relationships between groups of things with a clear, visual display. Let your ideas overlap In a Venn diagram, large circles represent groups of things with a shared attribute.

2018 Managing 100 Digital Humanities Projects: Digital Scholarship & Archiving in King’s Digital Lab James Smithies, King's College London; Carina Westling, King's College London; Anna-Maria Sichani, King's College London; Pam Mellen, King's College London; Arianna Ciula, King's College London Modelling Medieval Hands: Practical OCR for Caroline Minuscule Brandon W. Catalog The Socrata Open Data API (SODA) allows software developers to access data hosted in Socrata data sites programmatically. Developers can create applications that use the SODA APIs to visualize and “mash-up” Socrata datasets in new and exciting ways. Create an iPhone application that visualizes government spending in your area, a web application that allows citizens to look up potential government benefits they'd overlooked, or a service that automatically emails you when new earmarks are added to bills that you wish to track. To start accessing this dataset programmatically, use the API endpoint provided below. For more information and examples on how to use the Socrata Open Data API, reference our Developer Documentation.

Blog Announcement Community ~ gsoc It’s a great news, Gephi has been accepted again for the Google Summer of Code for the 5th year! The program is the best way for students around the world to start contributing to an open-source project. Since 2009, each edition is a great success and dramatically boosted Gephi’s project development. What is Gephi? Networks are everywhere: email systems, financial transaction systems and gene-protein interaction networks are just a few examples.

Why no one uses your government data » Ben Balter Publishing government information is about much more than simply throwing 0’s and 1’s over the firewall. It’s about building ecosystems and communities. It’s about solving shared challenges. It’s about consumption — after all, that’s the American way. Go to any agency website, and chances are you’ll find at least one dataset sitting idly by because the barrier to consume it is too damn high. Desktop This software has been renamed to Gapminder World Offline Because of technical problems the software on this page is no longer being maintained! Please visit Gapminder World Offline (Beta) instead. Gapminder Desktop With Gapminder Desktop you can show animated statistics from your own laptop! Install the free software and watch the how-to video with Hans Rosling.

Mapping redheads: which country has the most? A couple of months ago this map did the rounds. It's quite nice right? It shows that in most of Scotland and Ireland, as well as a random patch in central Russia, 10% of people are of the ginger genre. By contrast, less than 1 in every 100 people in southern Europe have red hair. Federal Government Challenges Post-Safety Datapalooza At last month’s White House Safety Datapalooza, several federal agencies issued challenges to civic minded developers to help the federal government solve real world problems ranging from health care, public safety, education, and more. Many of the previous winners of these challenges have been civic startups who have leveraged open data released on data.gov to help find creative ways to solve problems. Sketchnotes at the Public Data Safetypalooa, courtesy @anadiazhernandz Here’s a list of each challenge along with data resources and some examples of apps that work to solve similar problems.

Protovis Protovis composes custom views of data with simple marks such as bars and dots. Unlike low-level graphics libraries that quickly become tedious for visualization, Protovis defines marks through dynamic properties that encode data, allowing inheritance, scales and layouts to simplify construction. Protovis is free and open-source, provided under the BSD License. Field Notes: Building Data Dictionaries – Haystacks The scariest ghost stories I know take place when the history of data — how it’s collected, how it’s used, and what it’s meant to represent — becomes an oral history, passed down as campfire stories from one generation of analysts to another like a spooky game of telephone. These stories include eerie phrases like “I’m not sure where that comes from”, “I think that broke a few years ago and I’m not sure if it was fixed”, and the ever-ominous “the guy who did that left”. When hearing these stories, one can imagine that a written history of the data has never existed — or if it has, it’s overgrown with ivy and tech-debt in an isolated statuary, never to be used again.

Database Tutorial from: Transactions allow multiple users to work concurrently with the same data without compromising the integrity and correctness of the data Atomicity, consistency, isolation, and durability are together known as the ACID criteria. In an online application, database transactions must have extremely short lifespans. A database transaction should span a single batch of database operations, interleaved with business logic. Databases implement the notion of a unit of work as a database transaction.

Data Visualization Review: Gephi, Free Graph Exploration Software I do not often get to play with networks, yet I find them fascinating and full of knowledge gathering potential. The data visualization works of Moritz Stefaner, Jer Thorp, and Mark Lombardi captivate me. I am intrigued by relationships, how we perceive them, and how we can understand them. Gephi, the "Open Graph Viz Platform", is not just for the hobbiest node nerd.

- Open Science Data Cloud Human sequence data from populations around the world with the goal of cataloging human genetic variation. Total Size: 396.7TB Last Modified: June 4, 2013, 3:30 p.m. UTC

Related:  SoftwareSocial Network Analysiscarol_carnielli