Question: Quality filtering of reads with more than K bases under quality score
0
gravatar for Rezenman
3 days ago by
Rezenman0
Rezenman0 wrote:

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

sequencing next-gen • 59 views
ADD COMMENTlink modified 3 days ago by ATpoint28k • written 3 days ago by Rezenman0
0
gravatar for ATpoint
3 days ago by
ATpoint28k
Germany
ATpoint28k wrote:

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.

ADD COMMENTlink written 3 days ago by ATpoint28k
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