StartGuide.md

Quick Start Guide

This quick start guide gives a few example projects you can try and suggests some actions you can do with GenomeView.

You can also follow one of the tutorials instead.

• Install GenomeView.
• Start GenomeView
• Get your data ready: either
  • Get a Demo Dataset.
  • Prepare your data
• Load your Data
• Navigation and Keyboard short-cuts
• Visualizations
• Search for...
• Manipulating and configuring the views
• Editing annotations
• Exporting data and saving changes

You may also be interested in <a href="/content/where-do-i-find-documentation">places where to find further documentation.

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Get going with GenomeView with demo data

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• <a href="http://www.broadinstitute.org/software/genomeview/demo/b_anthracis\">Start GenomeView with demo data for B. anthracis preloaded
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• <a href="http://www.broadinstitute.org/software/genomeview/demo/c_elegans\">Start GenomeView with demo data for C. elegans preloaded
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• <a href="http://www.broadinstitute.org/software/genomeview/demo/d_melanogaster\">Start GenomeView with demo data for D. melanogaster preloaded
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\r\n<a href="http://www.broadinstitute.org/software/genomeview/demo/\">More information about demo data set, i.e. what types of data are included etc.\r\n\r\n\r\n

A four step guide to get going with GenomeView with your data

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1. <a href="http://genomeview.org/start/launch.jnlp\">Start GenomeView
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2. Check out the <a href="/content/load-data">load data page to learn how to load data and the <a href="/content/data-formats">list of supported data formats.
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3. \r\nCheck out the <a href="/content/user-interface">user interface documentation to learn about the different windows, panels in GenomeView.
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4. \r\nCheck out the <a href="/content/navigation">navigation documentation to get around your genome.
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Starting GenomeView for the first time

\r\nStep by step instructions on what to expect when starting GenomeView for the first time.\r\n\r\n

Prerequisite: Java 6
Make sure you have Java 6 or more recent installed. You can test which version you have installed at http://javatester.org\r\n\r\n

Step 1: Click the Web Start button
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Click the orange launch button in the top-left corner of the site or just below

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Step 2: Select Open With Java Web Start

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Once you click the orange launch button, you will likely get a pop-up that asks you with which program you want to open the link. \r\n\r\nAgree with what the pop-up windows ask. If youre unsure, <a href="/content/browser-pop-windows">detailed instructions for various browsers are available.\r\n\r\nStep 3: Waiting for GenomeView to start\r\nOnce you have approved our digital signature, GenomeView will start loading, you will see the following screens without any further input.\r\n\r\n[img_assist|nid=171|title=GenomeView starting|desc=|link=popup|align=none|width=640|height=497]\r\n\r\n\r\n[img_assist|nid=174|title=GenomeView started|desc=|link=popup|align=none|width=640|height=496]\r\n\r\nYou have now successfully started GenomeView!\r\n\r\n

Mac users only

\r\nYou may want to check out some <a href="/content/running-mac">specific tips for Mac users.\r\n\r\n\r\n\r\n\r\n