getKeggDefinitions: KEGG definitions, modules, and pathways by AptamerId

In readat: Functionality to Read and Manipulate SomaLogic ADAT files

Description

Gets the KEGG definitions, modules, and pathways associated with SomaLogic aptamer IDs.

Usage

getKeggDefinitions(aptamerIds = NULL, simplify = FALSE)

getKeggModules(aptamerIds = NULL, simplify = FALSE)

getKeggPathways(aptamerIds = NULL, simplify = FALSE)

Arguments

aptamerIds	A character vector of SomaLogic aptamer IDs, or NULL to use all aptamer IDs.
simplify	Logical. Should the output be collapsed into a single data.frame?

Value

A list of data frames. The names of the list are the input aptamerIds, and the data frame associated with that element contains:

UniProtId

Character. UniProt ID for the protein target.

KeggId

Character. KEGG ID for the gene that produces the target protein.

KeggDefinition

Character. Description corresponding to the KEGG ID.

KeggCytogenicLocation

Character. KEGG determination of the gene's locus.

Examples

# Each AptamerId may have one, many, or zero associated KEGG descriptions
getKeggDefinitions(c("2278-61", "3505-6", "4916-2"))
getKeggModules(c("2278-61", "3505-6", "4916-2"))
getKeggPathways(c("2278-61", "3505-6", "4916-2"))

# Get everything in the 1310 and 1129 panels.
## Not run: 
getKeggDefinitions()
getKeggModules()
getKeggPathways()

## End(Not run)

readat documentation built on Oct. 31, 2019, 8:19 a.m.