I just would like to know if there is an established Phred quality threshold in the literature in order to consider a SNP call reliable.
Provided the depth is higher than 30x (as showed in many papers), is the Phred Quality threshold to be chosen related to the coverage?
Are there commonly accepted criteria?
Provided the depth is higher than 30x (as showed in many papers), is the Phred Quality threshold to be chosen related to the coverage?
Are there commonly accepted criteria?
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