getBackground: Get compounds in the defined background

In b2slab/FELLA: Interpretation and enrichment for metabolomics data

Description

Extractor function for the compounds defined as background

Usage

getBackground(object)

Arguments

object

FELLA.USER object

Value

Vector of compounds in the background. If this vector is empty, all the compounds are used as background by default.

Examples

data(FELLA.sample)
data(input.sample)
input <- head(input.sample, 12)

## If the background is default, we see an empty vector 
## Note that the number of iterations is really small in the example
obj <- enrich(
compounds = input, 
method = "diffusion", 
approx = "simulation", 
niter = 100, 
data = FELLA.sample)

getBackground(obj)

## Otherwise we see the background compounds that mapped to the graph
obj <- enrich(
compounds = input, 
compoundsBackground = input.sample, 
method = "diffusion", 
approx = "simulation", 
niter = 100, 
data = FELLA.sample)
getBackground(obj)

b2slab/FELLA documentation built on March 3, 2021, 2:22 p.m.