• Manuals

Browse the manual

• Introduction to the Advanced RNA-Seq plugin
  • Input data and normalization
    • Normalization
    • Metadata
  • PCA for RNA-Seq
    • Principal component analysis plot (2D)
    • Principal component analysis plot (3D)
  • Differential Expression for RNA-Seq
    • The statistical model
    • Output of the Differential Expression for RNA-Seqtool
    • Statistical comparison tracks
    • The volcano plot
  • Create Heat Map for RNA-Seq
    • Clustering of features and samples
    • The heat map view
  • Create Expression Browser
    • The expression browser
  • Create Venn Diagram for RNA-Seq
    • Venn diagram table view
• Installation of the Advanced RNA-Seq plugin
• Uninstall
• Bibliography

Installation of the Advanced RNA-Seq plugin

Plugins are installed using the plugin manager. In order to install plugins on Windows, the Workbench must be run in administrator mode: Right-click the program shortcut and choose "Run as Administrator". Then follow the procedure described below.

        Help in the Menu Bar | Plugins... ()

   or  Plugins () in the Toolbar

The plugin manager has two tabs at the top:

• Manage Plugins. This is an overview of plugins that are installed.
• Download Plugins. This is an overview of available plugins on CLC bio's server.

To install a plugin, click the Download Plugins tab. This will display an overview of the plugins that are available for download and installation (see figure 2.1).

Figure 2.1: The plugins that are available for download.

Clicking a plugin will display additional information at the right side of the dialog. This will also display a button: Download and Install.

Click the Advanced RNA-Seq plugin and press Download and Install. A dialog displaying progress is now shown, and the plugin is downloaded and installed.

If the Advanced RNA-Seq plugin is not shown on the server, and you have it on your computer (for example if you have downloaded it from our website), you can install it by clicking the Install from File button at the bottom of the dialog. This will open a dialog where you can browse for the plugin. The plugin file should be a file of the type ".cpa".

When you close the dialog, you will be asked whether you wish to restart the CLC Workbench. The plugin will not be ready for use until you have restarted.

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