Mean samples coverage and mapping quality in Qualimap
Hello,
Can anyone explain what "mean samples coverage" means in Qualimap multi-sample report?
Also, what are the acceptable numbers for "mean samples coverage" and "Mean samples mapping quality"? After analyzing some 400 BAM files (from ddRAD data mapped to a scaffold-level reference genome) I got these numbers:
Mean samples mapping quality = 19.90
Mean samples coverage = 1.1
Are these good enough??
Thanks!
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