Hi All,
I was browsing online bioinformatics forum and stumbled onto query about primer, adapters that put me in thought about the process/pipeline I'm performing. I've Illumina paired-end 100bp, whole-genome bacterial data.
I assemble these reads using denovo assembler, things look good. But in an earlier step I trim these using trimmomatic tool, using an adapter file provided by sequencing center.
However, I never remove primers.
I'm wondering why I didn't remove primers, nor did I see any issue in my downstream analysis of ST identification, phylogenetic trees.
Should I not remove primers? Why?
I was browsing online bioinformatics forum and stumbled onto query about primer, adapters that put me in thought about the process/pipeline I'm performing. I've Illumina paired-end 100bp, whole-genome bacterial data.
I assemble these reads using denovo assembler, things look good. But in an earlier step I trim these using trimmomatic tool, using an adapter file provided by sequencing center.
However, I never remove primers.
I'm wondering why I didn't remove primers, nor did I see any issue in my downstream analysis of ST identification, phylogenetic trees.
Should I not remove primers? Why?
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