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Which info from the FastQC report will show you if the high number of duplicates is caused by high coverage?
Looking at the FastQC report do you think the high number of duplicates is caused by high coverage?
The next thing that comes to mind are housekeeping genes.
In RNASeq data housekeeping genes are known to cause a lot of duplication.
How can I check if the housekeeping genes are the cause of the high number of duplicates?