getSchemaClass: Schema class queries

In reactome/ReactomeContentService4R: Interface for the Reactome Content Service

Schema class queries

Description

Fetch instances by Class. All Classes see Reactome data schema.

Usage

getSchemaClass(
  class,
  species = NULL,
  all = FALSE,
  rows = 1000,
  minimised = FALSE,
  reference = FALSE
)

Arguments

class	schema class name
species	name or taxon id or dbId or abbreviation of species. Only Event and PhysicalEntity classes can specify species
all	to return ALL entries or not, default is FALSE
rows	the number of entries retrieved, default is 1000
minimised	to retrieve simplified entries (db id, stable id, displayName, type) or not, default is FALSE
reference	to retrieve simplified reference objects (db id, external identifier, external database name) or not, default is FALSE. Only for ReferenceEntity or ExternalOntology class

Value

a sorted dataframe containing entries that belong to the specified schema class

See Also

Other getContent: getEntities(), getEventsHierarchy(), getOrthology(), getParticipants(), getPathways(), getPerson(), getSpecies(), query()

Examples

## Not run: 
getSchemaClass(class="Drug", all=TRUE)

## End(Not run)
getSchemaClass(class="Regulation", rows=20, minimised=TRUE)
getSchemaClass(class="Complex", species="pig", rows=10)

reactome/ReactomeContentService4R documentation built on May 1, 2023, 5:33 a.m.