david_stoolB_otus: David Stool Sequencing Data for Subject B

In hallucigenia-sparsa/seqtime: Time Series Analysis of Sequencing Data

David Stool Sequencing Data for Subject B

Description

The OTUs sequenced from stool samples of subject B over time.

Usage

data(david_stoolB_otus)

Format

An object of class data.frame with 5431 rows and 190 columns.

Details

Salmonella infection (food poisoning) peaked at day 159.

Value

#' @return OTUxSample matrix of size 5431 x 190

References

David et al. (2014) Host lifestyle affects human microbiota on daily timescales Genome Biology vol. 15 (7):R89 Genome Biology

Examples

data(david_stoolB_otus)
# Sort OTUs by abundance
sorted <- sort(apply(david_stoolB_otus,1,sum),
                 decreasing=TRUE,index.return=TRUE)
# Display the top 10 most abundant OTUs
tsplot(david_stoolB_otus[sorted$ix[1:10],], header = "Stool B")

hallucigenia-sparsa/seqtime documentation built on Jan. 9, 2023, 11:53 p.m.