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Adapter sequences not in overrepresented_sequences #592

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shubham1637 opened this issue Dec 23, 2024 · 0 comments
Open

Adapter sequences not in overrepresented_sequences #592

shubham1637 opened this issue Dec 23, 2024 · 0 comments

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@shubham1637
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shubham1637 commented Dec 23, 2024

Hi,
I am trying to identify the adapter sequences in the PE fastq file. However, the overrepresented_sequences field is empty. I also ran FASTQC and it does report that it has Illumina Universal adapter. Wondering is there is any flag that I need to set?

fastp -i rna_reads1.fastq.gz -I rna_reads2.fastq.gz --disable_adapter_trimming --thread 32 -j fastp.json --detect_adapter_for_pe

(base) [shubham FASTQ]$ grep -A 3 overrepresented fastp.json
		"overrepresented_sequences": {
		}
	},
	"read2_before_filtering": {

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