This tool removes orphan variants from a variant track. Homozygous variants are described as lacking a variant allele, i.e., a corresponding non-reference variant with exactly the same start and end positions.
To start the tool, go to:
Toolbox | Resequencing Analysis () | Variant Filtering () | Remove Homozygous Reference Variants ()
In the first dialog, select the variant track from which you would like to remove the homozygous variants, and click Next to decide whether to Save or Open the resulting variant track.