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.IX Title "BP_PROCESS_SGD 1p"
.TH BP_PROCESS_SGD 1p "2020-10-28" "perl v5.30.3" "User Contributed Perl Documentation"
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.SH "NAME"
bp_process_sgd.pl \- Massage SGD annotation flat files into a version suitable for the Generic Genome Browser
.SH "SYNOPSIS"
.IX Header "SYNOPSIS"
.Vb 1
\&  % bp_process_sgd.pl chromosomal_features.tab > yeast.gff
.Ve
.SH "DESCRIPTION"
.IX Header "DESCRIPTION"
This script massages the \s-1SGD\s0 sequence annotation flat files located at
ftp://genome\-ftp.stanford.edu/pub/yeast/data_dump/feature/chromosomal_features.tab
into a version of the \s-1GFF\s0 format suitable for display by the generic
genome browser.
.PP
To use this script, get the \s-1SGD\s0 chromosomal_features.tab file from the
\&\s-1FTP\s0 site listed above, and run the following command:
.PP
.Vb 1
\&  % bp_process_sgd.pl chromosomal_features.tab > yeast.gff
.Ve
.PP
The yeast.gff file can then be loaded into a Bio::DB::GFF database
using the following command:
.PP
.Vb 1
\&  % bulk_load_gff.pl \-d <databasename> yeast.gff
.Ve
.SH "SEE ALSO"
.IX Header "SEE ALSO"
Bio::DB::GFF, bulk_load_gff.pl, load_gff.pl
.SH "AUTHOR"
.IX Header "AUTHOR"
Lincoln Stein, lstein@cshl.org
.PP
Copyright (c) 2002 Cold Spring Harbor Laboratory
.PP
This library is free software; you can redistribute it and/or modify
it under the same terms as Perl itself.  See \s-1DISCLAIMER\s0.txt for
disclaimers of warranty.