caporaso_F4TongueL6: Caporaso Tongue Sequencing Data for Subject F4 on level 6

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

Caporaso Tongue Sequencing Data for Subject F4 on level 6

Description

Mostly genus-level counts (L6) from tongue samples of subject F4 over time.

Usage

data(caporaso_F4TongueL6)

Format

An object of class data.frame with 373 rows and 135 columns.

Details

Subject F4 was followed over 6 months. V4 16S region was sequenced. A counter was attached to genera appearing more than once in the count table.

Value

TaxonxSample matrix of size 373 x 135

References

Caporaso et al. (2011) Moving pictures of the human microbiome Genome Biology vol. 12:R50 Genome Biology

Examples

data(caporaso_F4TongueL6)
# sort taxa by abundance and print top 10 most abundant taxa
sorted <- sort(apply(caporaso_F4TongueL6,1,sum),decreasing = TRUE, index.return = TRUE)
rownames(caporaso_F4TongueL6)[sorted$ix[1:10]]

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