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Wiki for Sharing Methods and Data - Brain Mapping Unit

This is a wiki, a user-editable Web site. You can treat it as a perfectly ordinary Web site (read it), but you are also able to make changes to any page that has an edit link at the top of it. The more or you contribute, the more useful this page will become for current and future members of our group, so please feel free to add any relevant information!

Basic Background Reading

The first thing to do if you are starting out at the BMU is probably to read a couple of easy introductory papers on network science in general, as well as applied to neuroscience. Some useful papers to start with can be found at Introductory Papers

Sharing Data

In principle, we could put links to data located on the server so as to make it available to others in the group. Please make sure the data in question is free for you to share before doing this. Also, please try to document the data (a link to a paper describing the same dataset should do) and maybe add the name of the person that originally sourced the data.

Network Construction

Once we have constructed a full, weighted adjacency matrix Filtering

Network Analysis

All commonly used network measures have been implemented in MATLAB and bundled into a wonderful toolbox called the Brain Connectivity Toolbox by Olaf Sporns and collaborators. [[1]] They also welcome any additions to their toolbox, so feel free to contribute.

For the less computationally fluent: Yong Liu is developing a point-and-click toolbox of his own... it should be ready in late 2011.

Network Visualization

A variety of tools have been developed to generate efficient and pleasing graphical representations of networks:

• PAJEK is one of the most commonly used one: [[2]]

• Gephi is looking increasingly poliched: [[3]]

• GUESS is my personal favourite [[4]]

How To Edit the Wiki

• You can find some help on editing this wiki on HowToEdit