Quality filtering of reads with more than K bases under quality score
Hey all, I am currently working on an analysis of barcode sequencing and looking for a tool to filter reads with K bases under a specific quality score. Does anyone have an idea of such a tool ? Thanks ahead
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ATpoint
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Rezenman •
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Rezenman •
1 answer
Skewer https://github.com/relipmoc/skewer has an option to filter for a minumum average quality:
-Q, --mean-quality <int> The lowest mean quality value allowed before trimming; (0)
Since the barcodes are probably of equal length it should not be difficult to calculate an average minumum score based on your requirements to be used with this option.
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