Fetching latest commit…
Cannot retrieve the latest commit at this time
|Failed to load latest commit information.|
Bio::Graphics::Panel - Generate GD images of Bio::Seq objects SYNOPSIS use Ace::Sequence; # or any Bio::Seq factory use Bio::Graphics::Panel; my $db = Ace->connect(-host=>'brie2.cshl.org',-port=>2005) or die; my $cosmid = Ace::Sequence->new(-seq=>'Y16B4A', -db=>$db,-start=>-15000,-end=>15000) or die; my @transcripts = $cosmid->transcripts; my $panel = Ace::Graphics::Panel->new( -segment => $cosmid, -width => 800 ); $panel->add_track(arrow => $cosmid, -bump => 0, -tick=>2); $panel->add_track(transcript => \@transcripts, -bgcolor => 'wheat', -fgcolor => 'black', -key => 'Curated Genes', -bump => +1, -height => 10, -label => 1); my $boxes = $panel->boxes; print $panel->png; DESCRIPTION The Bio::Graphics::Panel class provides drawing and formatting services for any object that implements the Bio::SeqFeatureI interface, including Ace::Sequence::Feature and Das::Segment::Feature objects. It can be used to draw sequence annotations, physical (contig) maps, or any other type of map in which a set of discrete ranges need to be laid out on the number line. The module supports a drawing style in which each type of feature occupies a discrete "track" that spans the width of the display. Each track will have its own distinctive "glyph", a configurable graphical representation of the feature. The module also supports a more flexible style in which several different feature types and their associated glyphs can occupy the same track. The choice of glyph is under run-time control. Semantic zooming (for instance, changing the type of glyph depending on the density of features) is supported by a callback system for configuration variables. The module has built-in support for Bio::Das stylesheets, and stylesheet-driven configuration can be intermixed with semantic zooming, if desired. You can add a key to the generated image using either of two key styles. One style places the key captions at the top of each track. The other style generates a graphical key at the bottom of the image. Note that this modules depends on GD.