annmap.all: annmap 'all' functions

In annmap: Genome annotation and visualisation package pertaining to Affymetrix arrays and NGS analysis.

Description

Get all annotations for a given feature. For example, allGenes will return data for all the genes in the genome.

Usage

  allArrays( as.vector=FALSE )
  allChromosomes( as.vector=FALSE )
  allDomains( as.vector=FALSE )
  allEstExons( as.vector=FALSE )
  allEstGenes( as.vector=FALSE )
  allEstTranscripts( as.vector=FALSE )
  allExons( as.vector=FALSE )
  allGenes( as.vector=FALSE )
  allPredictionTranscripts( as.vector=FALSE )
  allProbes( as.vector=FALSE )
  allProbesets( as.vector=FALSE )
  allProteins( as.vector=FALSE )
  allSymbols( as.vector=FALSE )
  allSynonyms( as.vector=FALSE )
  allTranscripts( as.vector=FALSE )

Arguments

as.vector

If TRUE returns a vector of database identifiers. If FALSE returns a GRanges object containing detailed annotation.

Value

Returns a vector or GRanges object, as defined by as.vector.

Author(s)

Tim Yates

See Also

annmapTo
annmapDetails
annmapRange
annmapUtils
annmapFilters
GRanges

Examples

  if(interactive()) {
    annmapConnect()	
    allChromosomes()
    allChromosomes(as.vector=TRUE)
  }

annmap documentation built on Nov. 8, 2020, 7:43 p.m.