getCom: Get community

Description Usage Arguments Value Examples

View source: R/get-.R

Description

Extractor function for all the nodes from a level/community of KEGG graph

Usage

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getCom(data, level, format = "name")

Arguments

data

FELLA.DATA object

level

Desired level, can be coded as a number or a character: 1 or "pathway"; 2 or "module"; 3 or "enzyme"; 4 or "reaction"; 5 or "compound".

format

Format of the output, "name" returns KEGG IDs whereas "id" returns vertices IDs

Value

Vector of the names/ids of the desired KEGG graph community

Examples

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data(FELLA.sample)
## Pathways
getCom(FELLA.sample, 1, format = "name")
getCom(FELLA.sample, 1, format = "id")
## Modules
getCom(FELLA.sample, 2)
## Enzymes
head(getCom(FELLA.sample, 3))
## Reactions
head(getCom(FELLA.sample, 4))
## Compounds
head(getCom(FELLA.sample, 5))

FELLA documentation built on Nov. 1, 2018, 3:37 a.m.