sequenza tumor obly cnv

[Ouhao Lin]

sequnenza is now a very popular in hrd genomic scar detection, but it needs paired sample,  so can sequenza build a baseline and use tumor-only sample

Without normal, workaround

sequenza-utils bam2seqz --normal tumor_sample.bam --tumor tumor_sample.bam \ --normal2 non_matching_normal_sample.bam --fasta genome.fa.gz \ -gc genome_gc50.wig.gz --output sample.seqz.gz

but I do not know what is --normal2 non_matching_normal_sample.bam, can you tell me, and have you test the tumor-only sample in sequenza and use scarhrd to calculate the scores and compared it with the paired sample results?