R: Convert identities to indices for wKDA

kda.start.identify {Mergeomics}

R Documentation

Convert identities to indices for wKDA

Description

kda.start.identify searches the members of dat among the members of labels with respect to the varname attribute, returns the matching rows of the dat.

Usage

kda.start.identify(dat, varname, labels)

Arguments

`dat`	data list of the identities that will be searched
`varname`	search will be performed with respect to which attribute (MODULE or NODE)
`labels`	the place, where data list (i.e. `dat`) will be searched

Value

res

matched rows of dat among the members of labels list according to the varname attribute

Author(s)

Ville-Petteri Makinen

References

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.

Examples

## Converts identities (either module names or gene names) to the indices
aa<- data.frame(MODULE=c("Mod1", "Mod1", "Mod2", "Mod2", "Mod3"), 
NODE=c("GeneA", "GeneC", "GeneB", "GeneC", "GeneA"))
aa
bb <- kda.start.identify(aa, "MODULE", c("Mod1"))
bb
cc <- kda.start.identify(aa, "MODULE", c("Mod1", "Mod3"))
cc
dd <- kda.start.identify(aa, "NODE", c("GeneA"))
dd

[Package Mergeomics version 1.20.0 Index]