Biomarker variants not in Pathogenic/Likely Pathogenic section of report

[AidanGCr]

Hello,

I have run CPSR on some germline samples, and am looking at the biomarker section now. I see that class 4 and 5 variants overlapping the CIViC markers are considered, however, the biomarkers found in my reports (exact matches) are not reported in the class 4/5 section of the report, and variants noted in the biomarker section seem to be classified by CPSR as benign/likely benign in the output TSV. Furthermore, the benign/likely benign variants noted as biomarkers and as benign/likely benign in the TSV, are not reported in their corresponding (class 1/2) section of the HTML report. Is this expected behaviour, or am I missing something?

Thanks, Aidan