See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.
DESCRIPTIONThis is identical to the ``box'' glyph except that it will draw the subparts of features that contain subfeatures. The subparts are not connected --- use the ``segments'' glyph for that. ``Generic'' is the default glyph used when not otherwise specified.
METHODSThis module overrides the maxdepth() method to return 0 unless the -maxdepth option is provided explicitly. This means that any module that inherits from generic will need to override maxdepth() again in order to draw subfeatures. In general, those implementing multi-segmented feature glyphs should inherit from Bio::Graphics::Glyph::segments, which allows for one level of descent.
In addition, the following new methods are implemented:
- labelfont(), descfont(), labelwidth(), descriptionwidth()
- Return the font, width for the label or description.
- Return the glyph label text (printed above the glyph).
- Return the glyph description text (printed below the glyph).
- Draw the protein translation of the feature (assumes that the feature is attached to a DNA sequence).
- Draw the sequence of the feature (either DNA or protein).
OPTIONSThe following options are standard among all Glyphs. See Bio::Graphics::Glyph for a full explanation.
Option Description Default ------ ----------- ------- -fgcolor Foreground color black -bgcolor Background color turquoise -fillcolor Synonym for -bgcolor -linewidth Line width 1 -height Height of glyph 10 -font Default font gdSmallFont -label_font Font used for label gdSmallFont -desc_font Font used for description gdSmallFont -connector Connector type 0 (false) -connector_color Connector color black -pad_top Top padding 0 -pad_bottom Bottom padding 0 -label Whether to draw a label 0 (false) -label_position Where to draw the label "top" (default) or "left" -description Whether to draw a description 0 (false) -strand_arrow Whether to indicate 0 (false) strandedness -hilite Highlight color undef (no color) -draw_dna If true, draw the dna residues 0 (false) when magnification level allows. -canonical_strand If true, draw the dna residues 0 (false) as they appear on the plus strand even if the feature is on the minus strand.
-pad_top and -pad_bottom allow you to insert some blank space between the glyph's boundary and its contents. This is useful if you are changing the glyph's height dynamically based on its feature's score.
BUGSPlease report them.
AUTHORAllen Day <[email protected]>, Lincoln Stein <[email protected]>
Copyright (c) 2001 Cold Spring Harbor Laboratory Copyright (c) 2010 Ontario Institute for Cancer Research
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.