[EMBOSS] can vectorstrip trim only a substring of the adapter?

Peter Rice pmr at ebi.ac.uk
Tue Aug 18 16:06:43 UTC 2009

Dear Zhou Xiang,

> How can i trim only a substring of the adapter?

You can use the -mismatch parameter to increase the allowed number of

A higher percent mismatch allows less precise matching, but in this case the
value needs to be set quite high (25).

We are interested in any comments on removing 3' adapters from short
reads. We expect that we can find improvements in the methods used by
vectorstrip. Please send us any suggestions.


Peter Rice

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