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IHEC / ihec-assay-standards

This repo is for code and documentation associated with the ihec-assay-standards working group
Apache License 2.0
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Fixing total and mapped reads count by flagstat #9

Closed paulstretenowich closed 4 years ago

paulstretenowich commented 5 years ago

If the number of secondary and supplementary alignments is not substracted to total number of reads and mapped reads, we can end up with more reads than the number present in fastqs files.