Melt Matched Cross-Omics Features — melt_crossomics_features • microbiomedataset

Export matched microbiome and metabolome data as tidy long tables.

Usage

melt_crossomics_features(
  object = NULL,
  microbiome_data = NULL,
  metabolome_data = NULL,
  sample_link = NULL,
  microbiome_rank = NULL
)

Arguments

object: A microbiome_metabolome_dataset object.
microbiome_data: A microbiome_dataset object. Used when object is not supplied.
metabolome_data: A mass_dataset object. Used when object is not supplied.
sample_link: Optional sample link table used when object is not supplied.
microbiome_rank: Optional taxonomy rank used to aggregate microbiome abundance before melting.

Value

A list with microbiome and metabolome tibbles.

Examples

data("demo_crossomics", package = "microbiomedataset")

x <- create_microbiome_metabolome_dataset(
  microbiome_data = demo_crossomics$microbiome_data,
  metabolome_data = demo_crossomics$metabolome_data,
  sample_link = demo_crossomics$sample_link
)
y <- melt_crossomics_features(x, microbiome_rank = "Genus")
names(y)
#> [1] "microbiome" "metabolome"