cem_overlap {CEMiTool} | R Documentation |
Returns the occurrence of edges between different analyses
cem_overlap(analyses, num_studies = 0, desired_table = "adjacency", verbose = TRUE)
analyses |
List of objects of class |
num_studies |
The minimum number of objects in the |
desired_table |
Character string indicating the type of output to be returned. Default: 'adjacency'. |
verbose |
Logical. If |
The method assumes that all genes inside each module are connected to
every other gene from the same module. Argument desired_table must be one of
spearman
(returns Spearman's rho), pearson
(Pearson's R),
b_correlations
(returns adjacency list defined in CEMiTool object),
adjacency
(returns discretized edges)
Object of class data.frame
containing edgelist describing common
edges between the networks defined in module slots from the input objects
## Not run: # Run the cemitool function twice on expr dataset. Each time, one sample will be removed data(expr0) set.seed(10) dset1 <- expr0[,-sample(1:ncol(expr0), 1)] dset2 <- expr0[,-sample(1:ncol(expr0), 1)] cem1 <- cemitool(dset1, plot=FALSE) cem2 <- cemitool(dset2, plot=FALSE) cem_overlap_df <- cem_overlap(list(cem1, cem2)) ## End(Not run)