getBeIdNameTable: Get a table of biological entity (BE) identifiers and names

In BED: Biological Entity Dictionary (BED)

Get a table of biological entity (BE) identifiers and names

Description

Get a table of biological entity (BE) identifiers and names

Usage

getBeIdNameTable(
  be,
  source,
  organism,
  restricted,
  entity = TRUE,
  verbose = FALSE,
  recache = FALSE,
  filter = NULL
)

Arguments

be	one BE
source	the BE ID database
organism	organism name
restricted	boolean indicating if the results should be restricted to direct names
entity	boolean indicating if the technical ID of BE should be returned
verbose	boolean indicating if the CQL query should be displayed
recache	boolean indicating if the CQL query should be run even if the table is already in cache
filter	character vector on which to filter id. If NULL (default), the result is not filtered: all IDs are taken into account.

Value

a data.frame with the following fields:

• id: the from BE ID

• name: the BE name

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

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

See Also

getBeIdNames, getBeIdSymbolTable

Examples

## Not run: 
getBeIdNameTable(
   be="Gene",
   source="EntrezGene",
   organism="human"
)

## End(Not run)

BED documentation built on March 7, 2023, 6:54 p.m.