probes.in.range {exonmap}R Documentation

Given a set of chromosome coordinates, return the genomic features within

Description

Return the probes,probesets,exons,transcripts or genes between the specified locations.

Usage

probes.in.range(start, stop, strand, chr,unique=TRUE)
probesets.in.range(start, stop, strand, chr,unique=TRUE)
exons.in.range(start, stop, strand, chr,unique=TRUE)
transcripts.in.range(start, stop, strand, chr,unique=TRUE)
genes.in.range(start, stop, strand, chr,unique=TRUE)

Arguments

start Starting nucleotide position
stop Ending nucleotide position
strand 1 is forward, -1 is reverse
chr Chromosome
unique If TRUE remove duplicates

Details

Connects to the X:Map database to retrieve data. Before these functions can be used, xmapConnect must have been called.

Value

A character vector, of database identifiers.

Author(s)

C.J. Miller, M.J. Okoniewski

References

http://xmap.picr.man.ac.uk

See Also

xmapConnect

Examples

  if(interactive()) {
    xmapConnect()
    probes.in.range(1,1000,1,"1")
    probesets.in.range(1,1000,1,"1")
    exons.in.range(1,1000,1,"1")
    transcripts.in.range(1,1000,1,"1")
    genes.in.range(1,1000,1,"1")
  }

[Package exonmap version 2.0.03 Index]