This is a test version of Biostars. For the public version, visit https://www.biostars.org.
adapter letters for cutadapt

friends,

from where i should know the adapter sequence for yeast for cutadapt please?

cutadapt ribo-seq trimming adapter

Ask the person who sequenced it.

i am searching for long time but no clue,...

1 answer

Organisms don't have adapter sequences. Adapter sequences are ligated onto the library fragments prior to sequencing as part of the library preparation process. You'll need to ask someone at the sequencing facility for the adapter sequences, or ask which kit they used for the library prep and obtain the sequences from the vendor.

If for some reason no one can provide that information to you, a quick way to possibly find adapter sequences if they exist is to use FastQC. Look in the "Overrepresented Sequences" section of the report after you run an untrimmed FASTQ file through it.

thank you Dan

Log in to answer this question.