Question: Quality filtering of reads with more than K bases under quality score
0
gravatar for Rezenman
8 months 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 • 134 views
ADD COMMENTlink modified 8 months ago by ATpoint38k • written 8 months ago by Rezenman0
0
gravatar for ATpoint
8 months ago by
ATpoint38k
Germany
ATpoint38k 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 8 months ago by ATpoint38k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1381 users visited in the last hour