Appropriate Trimming Parameter
Hi, I just received the raw sequence data from shotgun metagenomic sequencing. Most of them are collected from cattle feces. And I want to study antimicrobial resistance profiles. However, I am not sure which trimming parameter I should use. I use trimmomatic, and my current setting is ''SLIDINGWINDOW：4：20 MINLEN 50" I look forward to your advice.
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