Bio::Graphics::Glyph::arrow(3pm) User Contributed Perl Documentation Bio::Graphics::Glyph::arrow(3pm)
NAME
Bio::Graphics::Glyph::arrow - the "arrow" glyph
SYNOPSIS
See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.
DESCRIPTION
This glyph draws arrows. Depending on options, the arrows can be labeled, be oriented vertically or horizontally, or can contain major and
minor ticks suitable for use as a scale.
OPTIONS
The following options are standard among all Glyphs. See Bio::Graphics::Glyph for a full explanation.
Option Description Default
------ ----------- -------
-fgcolor Foreground color black
-outlinecolor Synonym for -fgcolor
-bgcolor Background color turquoise
-fillcolor Synonym for -bgcolor
-linewidth Line width 1
-height Height of glyph 10
-font Glyph font gdSmallFont
-connector Connector type 0 (false)
-connector_color
Connector color black
-label Whether to draw a label 0 (false)
-description Whether to draw a description 0 (false)
-hilite Highlight color undef (no color)
In addition to the common options, the following glyph-specific options are recognized:
Option Description Default
------ ----------- -------
-tick Whether to draw major 0
and minor ticks.
0 = no ticks
1 = major ticks
2 = minor ticks
-tickcolor Color to use for tick marks fgcolor
-tickwidth Line width to use for ticks linewidth
-parallel Whether to draw the arrow 1 (true)
parallel to the sequence
or perpendicular to it.
-northeast Force a north or east 1 (true)
arrowhead(depending
on orientation)
-east synonym of above
-southwest Force a south or west 1 (true)
arrowhead(depending
on orientation)
-west synonym of above
-double force-doubleheaded arrow 0 (false)
-base Draw a vertical base at the 0 (false)
non-arrowhead side
-scale Reset the labels on the arrow 0 (false)
to reflect an externally
established scale.
-arrowstyle "regular" to create a simple regular
arrowhead. "filled" to create
a thick filled arrowhead
-relative_coords
use relative coordinates 0 (false)
for scale
-relative_coords_offset
set the relative offset 1
for scale
-label_intervals 0 (false)
Put the numeric labels on the
intervals between the ticks
rather than on the ticks
themselves.
-units add units to the tick labels none
e.g. bp
-unit_divider 1
divide tick labels by the
indicated amount prior to
displaying (use, for example
if you want to display in
cR units)
Set -parallel to 0 (false) to display a point-like feature such as a polymorphism, or to indicate an important location. If the feature
start == end, then the glyph will draw a single arrow at the designated location:
^
|
Otherwise, there will be two arrows at the start and end:
^ ^
| |
Scale: Pass in a externally established scale to reset the labels on the arrow. This is particularly useful for manually constructed
images where the founding parameters of the panel are not 1-based. For example, a genetic map interval ranging from 0.1 - 0.3 can be
constructed by first multiplying every value by 100. Passing
arrow(-scale=>100);
will draw tick marks labelled appropriately to your external scale.
BUGS
Please report them.
SEE ALSO
Bio::Graphics::Panel, Bio::Graphics::Glyph, Bio::Graphics::Glyph::arrow, Bio::Graphics::Glyph::cds, Bio::Graphics::Glyph::crossbox,
Bio::Graphics::Glyph::diamond, Bio::Graphics::Glyph::dna, Bio::Graphics::Glyph::dot, Bio::Graphics::Glyph::ellipse,
Bio::Graphics::Glyph::extending_arrow, Bio::Graphics::Glyph::generic, Bio::Graphics::Glyph::graded_segments,
Bio::Graphics::Glyph::heterogeneous_segments, Bio::Graphics::Glyph::line, Bio::Graphics::Glyph::pinsertion, Bio::Graphics::Glyph::primers,
Bio::Graphics::Glyph::rndrect, Bio::Graphics::Glyph::segments, Bio::Graphics::Glyph::ruler_arrow, Bio::Graphics::Glyph::toomany,
Bio::Graphics::Glyph::transcript, Bio::Graphics::Glyph::transcript2, Bio::Graphics::Glyph::translation, Bio::Graphics::Glyph::triangle,
Bio::DB::GFF, Bio::SeqI, Bio::SeqFeatureI, Bio::Das, GD
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 2012-02-20 Bio::Graphics::Glyph::arrow(3pm)