Lincoln D. Stein > AcePerl-1.92 > Ace::Graphics::Glyph::segments

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NAME ^

Ace::Graphics::Glyph::segments - The "discontinuous segments" glyph

SYNOPSIS ^

  See L<Ace::Graphics::Panel> and L<Ace::Graphics::Glyph>.

DESCRIPTION ^

This glyph draws a sequence feature that consists of multiple discontinuous segments, such as the exons on a transcript or a gapped alignment. The representation is a series of filled rectangles connected by line segments.

The features passed to it must either respond to the Bio::SequenceFeatureI-style subSeqFeatures() method, or the AcePerl/Das-style segments() or merged_segments() methods.

OPTIONS

In addition to the common options, this glyph recognizes the b<-stranded> argument. If b<-stranded> is true and the feature is an alignment (has the target() method) then the glyph will draw little arrows in the segment boxes to indicate the direction of the alignment.

BUGS ^

Please report them.

SEE ALSO ^

Ace::Sequence, Ace::Sequence::Feature, Ace::Graphics::Panel, Ace::Graphics::Track, Ace::Graphics::Glyph::anchored_arrow, Ace::Graphics::Glyph::arrow, Ace::Graphics::Glyph::box, Ace::Graphics::Glyph::primers, Ace::Graphics::Glyph::segments, Ace::Graphics::Glyph::toomany, Ace::Graphics::Glyph::transcript,

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.

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