fix: add nofilter flag for variant calls

[thomasbtf]

Description

This PR adds a nofilter flag for variant calls. This flag was already prepared (see wildcards-constrains), but never used. This PR is needed for the benchmarking.

Related Issue

N/A

Checklist

• [X] I've formatted the PR title in accordance with the structure of the conventional commit messages.
• [X] I've updated the code style using pre-commit if needed.
• [X] I've updated or supplemented the documentation as needed.
• [X] I've read the CODE_OF_CONDUCT.md document.
• [X] I've read the CONTRIBUTING.md guide.