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Nanopore Preprocessing Step

When I analyze Nanopore reading, should I analyze each file individually(I have over 1000 .fastq files) or combine it with the cat command to analyze it.

When I trim the adaptors is this beneficial to analysis of Nanopore ?

I trimmed the adaptors with Porechop, then I checking quality using FastQC then the average quality increased but, I saw overrepresented sequencing what should I do?

If you know anything on that topic can you share that articles?

Thank you

preprocessing nanoporesequencing rna-seq
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written by santos48 • santos48

1 answer

You can concatenate them using cat and analyze the aggregated file. You could also analyze them individually if you wish; each read is independent.

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written by Steven Lakin Steven Lakin

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written by Ram Ram

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