GSvar offline installation

General

This is the installation of GSvar offline (without NGSD database).
The package also contains an instance of IGV that is used by GSvar to visualize the NGS data.

Note: This portable executable works on Windows only!

Download

First we need to download GSvar, IGV and some data:
  1. Download the ZIP file.
  2. Unzip the file anywhere.
    Now you see the folders GSvar, IGV and genomes.
    Note: Network drives also work and can be used to install GSvar for several PCs at once!

Configuration

Now we need to change some settings:
  1. Replace all occurances of PATH in the file GSvar/settings.ini by the path you unzipped the ZIP file to.
  2. Replace all occurances of PATH in the file GSvar/GSvar.ini by the path you unzipped the ZIP file to.
Note: Make sure you use two backslashes instead of one in the INI file, e.g. C:\\download\\...

Test

Now you should be able to run the GSvar executable GSvar/GSvar.exe.

To load NGS data of a sample into GSvar, use the File > Open dialog to open a GSvar file.

Documentation

The documentation of GSvar can be found here.

Note:
The documentation is written for the online version with NGSD databases.
Thus, some functionality described in the documenatation is not available in your GSvar!