Phyloseq objects with datasets for the article "Response of the human gut and saliva microbiome to urbanization in Cameroon"

Phyloseq objects containing data used for analysis in Lokmer et al. (2020): Response of the human gut and saliva microbiome to urbanization in Cameroon, Sci Rep. Details can be found in Methods section of the article.<br>cameroon_2017_urbanization_wholeDS_phyloseq.RDS- list of phyloseq objects containing otu tables for ASVs, 85-99% opticlust and 85-99% bdtt OTUs and a genus otu table (RDP database based taxonomy)- all fecal and saliva microbiomes included- missing data in the metadata were imputed with missForest (original metadata can be found in Supplementary Table 1)<br>cameroon_2017_urbanization_ruralUrban_phyloseq.RDS- list of phyloseq objects containing otu tables for ASVs, 85-99% opticlust and 85-99% bdtt OTUs and a genus otu table (RDP database based taxonomy)<br>- fecal and saliva microbiomes of rural and urban samples only<br>- missing data in the metadata were imputed with missForest (original metadata can be found in Supplementary Table 1)<br>cameroon_2017_urbanization_wholeDS_PERFectFiltered_phyloseq.RDS<br>cameroon_2017_urbanization_ruralUrban_PERFectFiltered_phyloseq.RDS<br><br>- same as above, only the fecal and saliva microbiomes are in separate phyloseq objects as they were separately filtered for beta diversity analysis<br>