mia-datasets: mia datasets

In microbiome/mia: Microbiome analysis

mia datasets

Description

mia provides various datasets derived from independent experimental studies. The datasets represent instances of the TreeSummarizedExperiment and MultiAssayExperiment containers and can serve as tools to practice the mia functionality.

Details

Currently, the following datasets are available:

• dmn_se: A SummarizedExperiment with 130 features and 278 samples

• enterotype: A TreeSummarizedExperiment with 553 features and 280 samples

• esophagus: A TreeSummarizedExperiment with 58 features and 3 samples

• GlobalPatterns: A TreeSummarizedExperiment with 19216 features and 26 samples

• HintikkaXOData: A MultiAssayExperiment with 3 experiments (microbiota, metabolites and biomarkers)

• peerj13075: A TreeSummarizedExperiment with 674 features and 58 samples

• Tengeler2020: A TreeSummarizedExperiment with 151 features and 27 samples

Examples

# Load dataset from mia
library(mia)
data("GlobalPatterns", package = "mia")

# In this case, the dataset is a TreeSE, so it is renamed as tse
tse <- GlobalPatterns

# Print summary
tse

microbiome/mia documentation built on April 27, 2024, 4:04 a.m.