themetagenomics (version 1.0.2)

DAVID: Human longitudinal microbiome data

Description

This includes 16S amplicon sequencing measurements over time from 2 individuals. One donor provided both gut and oral samples, whereas the other donor provided only gut samples. The abundance table was generated via Dada2 using the Silva reference database. The data span 350 time points.

Usage

DAVID

Format

A list containing a 746x1493 matrix (ABUND), a 1493x7 matrix (TAX), and a 746x9 dataframe (META).

References

David, L. A., Materna, A. C., Friedman, J., Campos-Baptista, M. I., Blackburn, M. C., Perrotta, A., Erdman, S. E., and Alm, E. J. (2014). Genome Biology. 15:R89.

Examples

# NOT RUN {
hist(log(DAVID$ABUND + 1),100)
table(DAVID$META$Site,DAVID$META$Donor)
# }