Fig. 2.

Fig. 2. The positivity distribution of mNGS and the conventional method in 52 patients with pulmonary infections. (A) ARB identified as positive in 52 clinical samples by both reads-based and assembly-based methods. The upper bar plot represents the prevalence of each core genus; different colors refer to different genera. The red bar and blue bar show the frequency of ARB by the reads-based method and assembly-based method, respectively. The gray bar plot represents the non-ARB in either of these two methods. (B)Venn diagram showing the number distribution of ARB by two methods. (C) Pathogens detected by culture, antibiotic susceptibility testing (AST) results, and reads-based and assembly-based methods and analysis are shown in the heatmap. All pathogens labeled with red (reads-based) and blue (assembly-based) are the overall mNGS detection results. The parts with * imply that ARB have been confirmed by mNGS. ^*C: culture results; ^*A: AST results; ^*CA: ARB confirmed by culture and AST. Upset plot showing the number of differential pathogens identified via the reads-based method (D) and assembly-based method (E) shared by combinations of culture and AST. The number above each column represents the size of differential pathogens. The set size on the right represents the number of differential pathogens in each cohort, and the connected dots represent the common differential species across connected cohorts. The number of pathogens reported by mNGS, and AST-confirmed positive cases and suspected positive cases are shown in the Venn diagram to analyze the consistency rate.

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