Generate metabolites-exposures network

getemnet(meta, expo, cutoffm = 0.9, cutoffe = 0.6, nacf = 0.2, ...)

Arguments

meta: metabolites dataframe with row as metabolites/peaks and column as samples
expo: exposures dataframe with row as exposures/peaks and column as samples
cutoffm: correlation coefficient cutoff for metabolites-metabolites network
cutoffe: correlation coefficient cutoff for exposures-exposures network
nacf: NA cutoff for exposure, exposure with NA percentage larger than cutoff will be removed and others will be imputed by knn methods, default 0.2
...: other parameters for `cor`

Value

list with table of metabolites-exposures, metabolites-exposures network clusters data and edge table

Examples

data(expo)
data(meta)
me <- getemnet(exp(meta),expo)
#> 9 metabolites correlation network clusters found
#> 155 out of 177 metabolites have no correlation with other metabolites
#> 7 exposures could be used for network analysis
#> exposures have no correlation with each others.
#> 116 peaks with multiple exposures associated
#> 14 peaks with 5 exposures associated
#> 27 peaks with 3 exposures associated
#> 32 peaks with 1 exposures associated
#> 49 peaks with 2 exposures associated
#> 13 peaks with 4 exposures associated
#> 13 peaks with 6 exposures associated
#> 14 peaks connected with other peaks and exposures
#> 134 peaks connected with exposures only