BP_META_GFF(1p) User Contributed Perl Documentation BP_META_GFF(1p)NAME
bp_meta_gff.pl - Get/set Bio::DB::GFF meta-data
SYNOPSIS
# set the following meta data values
% bp_meta_gff.pl -d testdb tag1=value1 tag2=value2
# get the indicated meta data value
% bp_meta_gff.pl -d testdb tag1 tag2
DESCRIPTION
This script gets or sets metadata in a Bio::DB::GFF database. Not all adaptors support this operation! To set a series of tags, pass a
set of tag=value pairs to the script. To get the contents of a series of tags, pass the bare tag names.
The output from the get operation will be an easily parseable set of tag=value pairs, one per line.
COMMAND-LINE OPTIONS
Command-line options can be abbreviated to single-letter options. e.g. -d instead of --database.
--database <dsn> Mysql database name (default dbi:mysql:test)
--adaptor <adaptor> Mysql adaptor (default dbi::mysqlopt)
--user <user> Username for mysql authentication
--pass <password> Password for mysql authentication
SEE ALSO
Bio::DB::GFF
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 v5.14.2 2012-03-02 BP_META_GFF(1p)
Check Out this Related Man Page
BP_GENERATE_HISTOGRAM(1p) User Contributed Perl Documentation BP_GENERATE_HISTOGRAM(1p)NAME
generate_histogram.pl -- Generate a histogram of Bio::DB::GFF features
SYNOPSIS
generate_histogram.pl -d gadfly variation gene:curated
DESCRIPTION
Use this utility to generate feature density histograms from Bio::DB::GFF databases. The result is a GFF data file that is suitable for
loading with load_gff.pl.
OPTIONS
The following options are recognized:
Option Description
-----------------
--dsn <dsn> Data source (default dbi:mysql:test)
--adaptor <adaptor> Schema adaptor (default dbi::mysqlopt)
--user <user> Username for mysql authentication
--pass <password> Password for mysql authentication
--aggregator <list> Comma-separated list of aggregators
BUGS
Please report them.
SEE ALSO
Bio::DB::GFF
AUTHOR
Lincoln Stein <lstein@cshl.org>
Copyright (c) 2001 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 v5.14.2 2012-03-02 BP_GENERATE_HISTOGRAM(1p)
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