taxtab6 {metamicrobiomeR}

Taxonomic relative abundance data.

Description

Monthly longitudinal relative abundance data from phylum to genus level of 50 infants from birth to 2 year of life. Mapping file is merged to the data for ready use.

Usage

data(taxtab6)

Format

A data frame with 322 row (samples) and 803 variables (including mapping varilable and bacterial taxonomies from phylum to genus level).

Source

Gordon Lab

References

Subramanian et al. Nature. 2014 Jun 19; 510(7505): 417–421. (PubMed)

Examples

#Load summary tables of bacterial taxa relative abundance from Bangladesh data
data(taxtab6)
tab6<-as.data.frame(taxtab6)
tl<-colnames(taxtab6)[grep("k__bacteria.p__fusobacteria",colnames(taxtab6))]
taxacom.ex<-taxa.compare(taxtab=tab6[,c("personid","x.sampleid","bf","age.sample",tl)],
propmed.rel="gamlss",comvar="bf",adjustvar="age.sample",
longitudinal="yes",p.adjust.method="fdr")