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Removing duplicates

It is always a good practice to check that your sequence reads don't contain too many duplicates.

# Sample with duplicates of class: ShortReadQ
dfqsample

# Get the reads from dfqsample
mydReads <- sread(dfqsample)

# Counting duplicates
table(srduplicated(mydReads))

How would you go about filtering duplicated reads in a file? Pay attention to what the condition should be in this filter.

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