The subway microbiome: seasonal dynamics and direct comparison of air and surface bacterial communities

Microbiome

Table 3 Random forest classification models of air/surface

Air/surface
Out-of-bag estimate of error rate: 6.1%
Confusion matrix	Air	Surface	Class error (%)
Air	56	13	18.8
Surface	2	175	1.1
Most important genera in sample classification
Family:Genera	Air	Surface	MDA
Burkholderiaceae:Ralstonia	0.027	0.010	0.015
Streptomycetaceae:Streptomyces	0.020	0.006	0.010
Pseudonocardiaceae:Pseudonocardia	0.018	0.006	0.009
Streptococcaceae:Streptococcus	0.015	0.004	0.007
Pseudonocardiaceae:Saccharopolyspora	0.012	0.004	0.006
Neisseriaceae:Neisseria	0.013	0.003	0.006
Nocardiopsaceae:Nocardiopsis	0.011	0.004	0.006
Rubrobacteriaceae:Rubrobacter	0.011	0.004	0.006
Micrococcaceae:Micrococcus	0.008	0.004	0.005
Carnobacteriaceae:Granulicatella	0.012	0.003	0.005
Pasteurellaceae:Haemophilus	0.012	0.002	0.005
Peptostreptococcaceae:Terrisporobacter	0.008	0.004	0.005
Micrococcaceae:Pseudarthrobacter	0.009	0.003	0.005
Planococcaceae:Planomicrobium	0.009	0.003	0.005
Halococcaceae:Halococcus	0.007	0.003	0.004
Micrococcaceae:Rothia	0.008	0.002	0.004
Halococcaceae:Halalkalicoccus	0.007	0.002	0.003
Porphyromonadaceae:Porphyromonas	0.007	0.002	0.003
Planococcaceae:Planococcus	0.007	0.002	0.003
Pseudonocardiaceae:Actinomycetospora	0.006	0.002	0.003

Confusion matrices show the classification of samples and the associated class error. The mean decrease in model accuracy (MDA; from removing the genus in question) and mean Z-scores are given for the 20 most important genera for classifying samples

ISSN: 2049-2618