bp_process_sgd.pl(1) Massage SGD annotation flat files into a version suitable for the Generic Genome Browser


% bp_process_sgd.pl chromosomal_features.tab > yeast.gff


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


Lincoln Stein, [email protected]

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.