getBeIdSymbols: Get symbols of Biological Entity identifiers

In patzaw/BED: Biological Entity Dictionary (BED)

Get symbols of Biological Entity identifiers

Description

Get symbols of Biological Entity identifiers

Usage

getBeIdSymbols(ids, be, source, organism, limForCache = 4000, ...)

Arguments

ids	list of identifiers
be	one BE. Guessed if not provided
source	the BE ID database. Guessed if not provided
organism	organism name. Guessed if not provided
limForCache	if there are more ids than limForCache. Results are collected for all IDs (beyond provided ids) and cached for futur queries. If not, results are collected only for provided ids and not cached.
...	params for the getBeIdSymbolTable function

Value

a data.frame with the following fields:

• id: the from BE ID

• symbol: the BE symbol

• canonical: true if the symbol is canonical for the direct BE ID

• direct: false if the symbol is not directly associated to the BE ID

• preferred: true if the id is the preferred identifier for the BE

• entity: (optional) the technical ID of to BE

See Also

getBeIdSymbolTable, getBeIdNames

Examples

## Not run: 
getBeIdSymbols(
   ids=c("10", "100"),
   be="Gene",
   source="EntrezGene",
   organism="human"
)

## End(Not run)

patzaw/BED documentation built on Dec. 13, 2024, 4:29 a.m.