In my soil microbiome project, I'm facing an issue with low mapping rates when aligning reads to the reference genome. To improve read alignment, I am exploring Bowtie2's sensitivity options. According to the documentation, Bowtie2 offers two high-sensitivity parameters: --very-sensitive and --very-sensitive-local. However, I am unsure which would be more effective for metagenomic soil samples, given their high diversity and the presence of fragmented sequences. Thank you for your guidance.