annmap.env: annmap 'env' functions

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

Description

Functions to access internal parameters

Usage

  annmapEnv()
  annmapGetParam( key )
  annmapSetParam( ... )

Arguments

...	A list of key-value parameters you wish to set.
key	The key for the value you want to return.

Details

These functions allow some access to annmap\'s configuration data. They are included to help debug database connection issues, and are not normally needed.

On connection, a default arraytype (Affymetrix Exon arrays, where available) is specfied for the probe mappings. arrayType allows a different type of array to be specfied. This included for future compatibility.

Author(s)

Tim Yates Crispin J. Miller

See Also

annmapTo
annmapDetails
annmapAll
annmapRange
annmapFilters

Examples

  if(interactive()) {
    annmapEnv()
    annmapGetParam( "debug" )
    annmapConnect()
    annmapSetParam( debug=TRUE)
    annmapConnect()
    annmapSetParam( debug=FALSE)
    annmapDisconnect()
  }

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