Export Genotype Track as VCF

Using VCF (Genotype track) (beta) it is possible to export variants in a Genotype track to VCF file. Below are the main differences between VCF (Genotype track) (beta) and the standard VCF exporter in the workbench:

Learn more about the standard VCF exporter here: http://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/1203/index.php?manual=Export_in_VCF_format.html.

To export variants in a Genotype track to VCF, click Export in the Toolbar and choose the tool VCF (Genotype track) (beta). Specify the Genotype tracks that should be exported and click Next. This will open a dialog as shown in figure 3.1.

Image exportvcf
Figure 3.1: Setting parameters for export.

The following parameters can be adjusted in the dialog: