Hello:
I am trying to understand whether there is some drastic difference between on-target and off-target reads. I assume that even if there is a true variant outside of target region, it is not of interest anyway. Apart from that, is there any difference between the two sets of reads and the variants detected by such reads?
In terms of (quantitative) metrics that can be computed for VCF files, is there any difference between the variants inside and outside of target region? For instance, if I were to compute an average depth across variants inside the target region, will it be higher than the depth outside the target region?
Thanks in advance,
Nik
I am trying to understand whether there is some drastic difference between on-target and off-target reads. I assume that even if there is a true variant outside of target region, it is not of interest anyway. Apart from that, is there any difference between the two sets of reads and the variants detected by such reads?
In terms of (quantitative) metrics that can be computed for VCF files, is there any difference between the variants inside and outside of target region? For instance, if I were to compute an average depth across variants inside the target region, will it be higher than the depth outside the target region?
Thanks in advance,
Nik
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