it is great fastp and fast, but it is also performing trimming - somehow I should run fastp without performing trimming in the same time ... which means I have just to delete the trimmed fastq and keep the statistics of the original (before trimming). Great, simply.
Fast tool for FASTQ Q30 calculation
Hi, I was looking for a tool to use to calculate the number of bases with >= Q20 and Q30 in a WGS. I tested an AWK code and an R package but with a 50X WGS they need days to finish. Is there any tool that can do this work in a couple of hours? Thanks
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I use fastp for this https://github.com/OpenGene/fastp
- fast
- nice reports
- slots into multiqc
- reports Q20 and Q30 bases
- shows before and after trimming
- also works for long reads eg nanopore
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