tool.aggregate: Aggregate the entries
In zeynebkurtUCLA/Mergeomics: Integrative network analysis of omics data

Description Usage Arguments Value Author(s) References Examples

tool.aggregate aggregates the entries with respect to the given feature. It first finds raw indices (either genes or markers), then sorts them, and finds the blocks (segments) of identical entries.

1	tool.aggregate(entries, limit = 1)

`entries`	an array that will be sorted and aggregated within blocks
`limit`	minimum block size to be included

res

a data list with the following components:

labels: shared values within blocks
lengths: numbers of entries in blocks
blocks: integer arrays of entry positions within blocks
ranks: entry positions included in blocks

Ville-Petteri Makinen

Shu L, Zhao Y, Kurt Z, Byars SG, Tukiainen T, Kettunen J, Orozco LD, Pellegrini M, Lusis AJ, Ripatti S, Zhang B, Inouye M, Makinen V-P, Yang X. Mergeomics: multidimensional data integration to identify pathogenic perturbations to biological systems. BMC genomics. 2016;17(1):874.

aa <- data.frame(MODULE=c("Mod1", "Mod1", "Mod2", "Mod2", "Mod3"), 
GENE=c("GeneA", "GeneC", "GeneB", "GeneC", "GeneA"))
## aggregate according to the module names:
bb <- tool.aggregate(aa$MODULE)
bb
## aggregate according to the gene names:
cc <- tool.aggregate(aa$GENE)
cc