esophagus: Human esophageal community from 3 individuals

In FelixErnst/mia: Microbiome analysis

Human esophageal community from 3 individuals

Description

This small dataset from a human esophageal community includes 3 samples from 3 human adults based on biopsies analysed with 16S rDNA PCR. The 16S rRNA sequence processing is provided in the mothur wiki from the link below. It was converted into a TreeSummarizedExperiment from the phyloseq package.

Usage

data(esophagus)

Format

A TreeSummarizedExperiment with 58 features and 3 samples. The rowData contains no taxonomic information. The colData is empty.

Author(s)

Pei et al. [e-mail].

Source

http://www.mothur.org/wiki/Esophageal_community_analysis

References

Pei, Z., Bini, E. J., Yang, L., Zhou, M., Francois, F., & Blaser, M. J. (2004). Bacterial biota in the human distal esophagus. Proceedings of the National Academy of Sciences of the United States of America, 101(12), 4250-4255. https://doi.org/10.1073/pnas.0306398101

McMurdie, J. & Holmes, S. (2013) phyloseq: An R Package for reproducible interactive analysis and graphics of microbiome census data. PLoS ONE. 8(4):e61217. https://doi.org/10.1371/journal.pone.0061217

See Also

mia-datasets

FelixErnst/mia documentation built on Nov. 18, 2024, 5:02 a.m.