Comprehensive simulation of metagenomic sequencing data with non‐uniform sampling distribution

• DOI: 10.1007/s40484-018-0142-9
• Publication Date: 2018-07-26T09:19:03Z
• Authors: Shansong Liu; Kui Hua; Sijie Chen; Xuegong Zhang
• Keywords: Benchmarking

Background Metagenomic sequencing is a complex sampling procedure from unknown mixtures of many genomes. Having metagenome data with known genome compositions essential for both benchmarking bioinformatics software and investigating influences various factors on the data. Compared to real microbiome samples or defined microbial mock community, simulated proper computational models are better purpose as they provide more flexibility controlling multiple factors. Methods We developed non‐uniform metagenomic simulation system (nuMetaSim) that capable mimicking in reflect properties customizable parameter settings. Results generated 9 comprehensive datasets different composition complexity 203 bacterial genomes 2 archaeal related human intestine system. Conclusion The can serve benchmarks comparing performance methods at situations, package allows users generate specific their scenarios.