This time-series data set contains 16S rRNA gene profiles of
two adults (host_subject_id F4 and M3) sampled at four body sites
(common_sample_site: feces, left palm, right palm and tongue),
mostly daily.
data(MovingPictures)The data set in
TreeSummarizedExperiment
format.
Loads the data set in R.
The data contains 1967 samples, taken over 186 days for F4 and
445 days for M3 (days_since_experiment_start). The OTUs of the source are
agglomerated to genus; OTUs without a genus are kept at their lowest
assigned rank, so no reads are lost. The result has 1650 features and a
matching phylogenetic tree. The original study marked 13 samples as
mislabeled (mislabeled).
The data come from the MovingPictures phyloseq object of the MicrobeDS
package (https://github.com/twbattaglia/MicrobeDS, CC0), from Qiita
study 550. The script inst/scripts/MovingPictures.R prepares the
object.
Caporaso JG, Lauber CL, Costello EK, et al. Moving pictures of the human microbiome. Genome Biology 12, R50 (2011). https://doi.org/10.1186/gb-2011-12-5-r50