NAME
Microarray::File::Clone_Locns - An object oriented Perl module describing a genomic clone location file
SYNOPSIS
use Microarray::File::Clone_Locns;
my $oFile = clone_locn_file->new('/clone_locns.txt');
my ($chr,$location) = $oFile->chr_location($clone);DESCRIPTION
Microarray::File::Clone_Locns provides methods for retrieving data from a genomic clone location file. Each row of the file contains a clone name and its genomic location in the format 'Name;bp;chr' (e.g. 'RP11-23C5;7853570;4'. The sex chromosomes can be denoted X and Y or 23 and 24.
METHODS
Pass each of the methods a feature name to return the relevant value.
- chromosome()
-
The chromosome name/number.
- location()
-
The bp location of the centre of the clone, where 0 is the chromosome p-ter.
- genomic_locn()
-
The bp location of the centre of the clone with respect to the entire genome, where 0 is chromosome 1pter.
- chr_location()
-
Returns (chromosome,location)
- clone_number
-
The number of clones listed in the file
SEE ALSO
AUTHOR
Christopher Jones, Translational Research Laboratories, Institute for Women's Health, University College London.
http://www.instituteforwomenshealth.ucl.ac.uk/trl
c.jones@ucl.ac.uk
COPYRIGHT AND LICENSE
Copyright 2007 by Christopher Jones, University College London
This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself.