The variant tracks produced by the variant detection tools of CLC Genomics Workbench include reference alleles complementing a non-reference allele (i.e. a heterozygous variant where only one allele is different from the reference). In some situations, this information is not necessary, and these reference allele variants can be filtered away.
Legacy Tools | Remove Reference Variants
This opens a dialog where you can select a variant track () that should be filtered.
Click Next and Finish to create a new track without the reference variants.
For removing reference variants whose alternate allele has already been filtered, use the tool Remove Homozygous Reference Variants. It is also possible to configure Filter on Custom Criteria with a criteria set to "Reference allele = No" to mimic the functionality of Remove Reference Variants.