How to remove nextera with fastp
When run Fastp with
fastp -i in.R1.fastq.gz -o out.R1.fastq.gz -I in.R2.fastq.gz -O out.R2.fastq.gz --detect_adapter_for_pe --disable_quality_filtering --length_required 15
Fastq still detects nextera transposase sequences in the output. Is there a way to remove them with Fastp?
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Istvan Albert
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written
by
Mat •
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written
by
Mat •
1 answer
Explicitly specify your adapters. Create the adapter file
>nextera
CTGTCTCTTATACACATCTCCGAGCCCACGAGAC
now use the file with the -a flag.
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Istvan Albert
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