They are all implicitly published under the CC0 waiver for maximum reuse potential. Please feel free to use, share, copy or adapt any of the training materials you find here. Simply navigate to the corresponding url, e.g.,ĭecktape automatic advanced-automation.pdf All content is tested in the latest versions of Firefox and Chrome. You can access training materials at any time via a web browser. Take note of modules that are organized vertically within a presentation. Use arrow keys, "space" or the on-screen arrows (lower right) to navigate the slides. protocols - General tutorials targeting common workflows or protocols designed for display on individual monitors and interactivity via CyBrowser typically linked to individually or in a presentation.modules - Concise material focused on specific tasks intended to be reused in.presentations - Specific programs compiled for target audiences designed for projector presentation to a group typically composed of custom slides together with general modules (see below).Integration with CyBrowser and C圜ommandsīrowse the available training materials already prepared:.In addition to the contents below, you can learn more about using reveal.js in general from the reveal-readme. Presentations, Protocols and ModulesĬheck out the current list of training materials.īuilding upon the powerful framework of reveal.js, we have developed a few custom features and styles tailored for use in Cytoscape training materials. The repo also includes a clone of the reveal.js code that enables the presentation mode for these modules and workshops. This repo contains a collection of training modules for Cytoscape that can be used to compose workshop presentations. How to Make and Present Cytoscape Tutorials This method takes a SwingConstants integer value, indicating a compass direction (this enables us to add additional CytoPanels in the future, if we decide that's necessary.Visit for a curated set of user tutorials. To obtain one, use the CytoscapeDesktop.getCytoPanel() method. If you are a core Cytoscape coder or a Plugin writer, here are a few tips to get started.Īs noted above, the Cytoscape Desktop contains three default CytoPanels. The CytoPanel API is straightforward and fully documented. The end-user can show / hide any panel via the new CytoPanel menu, or via the keyboard accelerator short-cuts. By default, only the Control CytoPanel will appear, and it will automatically contain the network list and bird's eye view component. For example, in the screenshot below, the user has chosen to float it:Ĭytoscape 2.2 now includes three CytoPanels: CytoPanel 1 ('Control' appears on the left), CytoPanel 2 ('Data' appears on the bottom), and CytoPanel 3 ('Results' appears on the right). The user can then chose to resize, hide or float the left CytoPanel. When you click on a node, the node details appear directly in the left CytoPanel. For example, the image below shows a screenshot of the latest BioPAX Plugin. Using the CytoPanel API, we can now show these node details in an embedded CytoPanel, and present a more integrated experience to the user. For example, in Cytoscape 2.1, the cPath Plugin enables users to click on a node and immediately view node details in a pop-up window. We built the CytoPanel API to cut down on the number of pop-up windows within Cytoscape, and create a more unified user experience. This feature is new in 2.2ĬytoPanels are floatable / dockable panels, which will be available in Cytoscape 2.2. This page describes what CytoPanels are, how to use them, and how to programmatically access them.
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