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BP_PROCESS_SGD(1)     User Contributed Perl Documentation    BP_PROCESS_SGD(1)


NAME

       bp_process_sgd.pl - Massage SGD annotation flat files into a version
       suitable for the Generic Genome Browser


SYNOPSIS

         % bp_process_sgd.pl chromosomal_features.tab > yeast.gff


DESCRIPTION

       This script massages the SGD sequence annotation flat files located at
       ftp://genome-ftp.stanford.edu/pub/yeast/data_dump/feature/chromosomal_features.tab
       into a version of the GFF format suitable for display by the generic
       genome browser.

       To use this script, get the SGD chromosomal_features.tab file from the
       FTP site listed above, and run the following command:

         % bp_process_sgd.pl chromosomal_features.tab > yeast.gff

       The yeast.gff file can then be loaded into a Bio::DB::GFF database
       using the following command:

         % bulk_load_gff.pl -d <databasename> yeast.gff


SEE ALSO

       Bio::DB::GFF, bulk_load_gff.pl, load_gff.pl


AUTHOR

       Lincoln Stein, lstein@cshl.org

       Copyright (c) 2002 Cold Spring Harbor Laboratory

       This library is free software; you can redistribute it and/or modify it
       under the same terms as Perl itself.  See DISCLAIMER.txt for
       disclaimers of warranty.

perl v5.20.2                      2015-09-15                 BP_PROCESS_SGD(1)

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