2 hours ago by
Firstly, I use fastqc to check the quality and I found the Per Base Sequence Content section was very poor,
and then I used fastp to do trimming as follow:
fastp -i con10.1.fq.gz -I con10.2.fq.gz -o ./QC/con10.1.fq.gz -O ./QC/con10.2.fq.gz -h con10.html -j con10.json
but when I did fastqc to the data after trimming, I found the sequence length distribution turned out so bad!!
The read length were supposed to be 150bp, but there were two broad peaks in the sequene length plot, one was near 60bp and another was near 149bp. Is this normal and can I still use this kind of data?
