CSMD: a computational subtraction-based microbiome discovery pipeline for species-level characterization of clinical metagenomic samples

• Published in: Bioinformatics Vol. 36; no. 5; pp. 1577 - 1583
• Main Authors: Liu, Yu, Bible, Paul W, Zou, Bin, Liang, Qiaoxing, Dong, Cong, Wen, Xiaofeng, Li, Yan, Ge, Xiaofei, Li, Xifang, Deng, Xiuli, Ma, Rong, Guo, Shixin, Liang, Juanran, Chen, Tingting, Pan, Wenliang, Liu, Lixin, Chen, Wei, Wang, Xueqin, Wei, Lai
• Format: Journal Article
• Language: English
• Published: England Oxford University Press 01.03.2020

Abstract Motivation Microbiome analyses of clinical samples with low microbial biomass are challenging because of the very small quantities of microbial DNA relative to the human host, ubiquitous contaminating DNA in sequencing experiments and the large and rapidly growing microbial reference databa...