Currently no specific support for somatic (or low grade mosaicism) mutations.

Solution:
Test default VIP on samples with known (ultra) low-grade mosaicism variants (somatic - oncology samples are the best).

If VIP is insufficient for this kind of data things to look into may include:

• The addition of a priori variants ( To add the possibility to detect previously detected variants)
• Same for known structural variants. ( You may want align reads to previously detected variant sequences specifically?)
• Gene panels (since the use of only a predetermined set of genes is practical/necessary)

Additional context
For future use in studies of (ultra) low-grade mosaicism (both cancer and rare-diseases).