Description:

General workflow outline for the paper:

Dataset generation

• Retrieve complete bacterial & archaeal genomes from NCBI
• Select 1 representive from each species

GC sliding window analysis

• Identify ssu, lsu, and tsu genes in each genom
• For each genome: sliding window analysis of GC around each 16S rRNA gene

Fragment simulation

• For each genome: simulate 1000 amplicons & 10000 shotgun reads
• For each amplicon/read: simulate a template fragment
• For each template fragment: calculate GC content and buoyant density (BD)
• For all fragments from each genome: bin fragments by BD and assess the distributions