microbiome-enigma: Microbiome, ENIGMA dataset results

In stephaniehicks/benchmarkfdrData2019: Data and Benchmarking Results from Korthauer and Kimes et al. (2019)

Microbiome, ENIGMA dataset results

Description

Results for case study on 16S microbiome Spearman correlation testing of ENIGMA dataset described in Korthauer and Kimes et al. (2019). Spearman correlation test was used to test for correlation between OTU-level microbial abundances and various geochemical and physical measurements.

Arguments

metadata

logical whether to load metadata (TRUE) or full resource (FALSE). (default = FALSE)

Details

Results for this case study include:

• enigma-al-otus-benchmark: testing for correlation with Al measurements using ubiquity as covariate.

• enigma-al-otus-abun-benchmark: testing for correlation with Al measurements using mean abundance as covariate.

• enigma-al-otus-uninf-benchmark: testing for correlation with Al measurements using uninformative covariate.

• enigma-ph-otus-benchmark: testing for correlation with pH measurements using ubiquity as covariate.

• enigma-ph-otus-abun-benchmark: testing for correlation with pH measurements using mean abundance as covariate.

• enigma-ph-otus-uninf-benchmark: testing for correlation with pH measurements using uninformative covariate.

• enigma-so4-otus-benchmark: testing for correlation with SO4 measurements using ubiquity as covariate.

• enigma-so4-otus-abun-benchmark: testing for correlation with SO4 measurements using mean abundance as covariate.

• enigma-so4-otus-uninf-benchmark: testing for correlation with SO4 measurements using uninformative covariate.

See Also

microbiome-schubert, microbiome-baxter, microbiome-goodrich, microbiome-papa

Examples

`enigma-al-otus-benchmark`(metadata = TRUE)

## Not run: 
`enigma-al-otus-benchmark`()
`enigma-al-otus-abun-benchmark`()
`enigma-al-otus-uninf-benchmark`()
`enigma-ph-otus-benchmark`()
`enigma-ph-otus-abun-benchmark`()
`enigma-ph-otus-uninf-benchmark`()
`enigma-so4-otus-benchmark`()
`enigma-so4-otus-abun-benchmark`()
`enigma-so4-otus-uninf-benchmark`()

## End(Not run)

stephaniehicks/benchmarkfdrData2019 documentation built on April 13, 2025, 9:02 p.m.