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OpenGene / fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
MIT License
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Request: supporting for amplicon sequencing #14

Closed lozybean closed 4 years ago

lozybean commented 6 years ago

Amplicon sequencing using a set of artificial, amplicon-specific primer. If a reads is beginning with this primer, it is a target reads, and artificial primer should be removed. Otherwise it should be filtered.

sfchen commented 6 years ago

Would you please upload two small files so that I can test: 1, an amplicon-seq FASTQ file 2, the corresponding primer list

lozybean commented 6 years ago

Hi, here is some test data: amplicon_data.tar.gz

Thanks.

sfchen commented 6 years ago

OK, but low priority.

lozybean commented 6 years ago

thanks and take your time.

lozybean commented 6 years ago

Another request: would you please add GC content in summary section?

sfchen commented 6 years ago

I'll add GC content in summary info.

marchoeppner commented 4 years ago

JUst came across this when trying to understand whether fastP would work on amplicon data - I take it it doesn't and that this issue is still unadressed?

sfchen commented 4 years ago

fastp already supports amplicon-seq data.