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<a href="Bio-module.html">Package Bio</a> ::
<a href="Bio.Graphics-module.html">Package Graphics</a> ::
Module BasicChromosome
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<h1 class="epydoc">Module BasicChromosome</h1><p class="nomargin-top"><span class="codelink"><a href="Bio.Graphics.BasicChromosome-pysrc.html">source code</a></span></p>
<p>Draw representations of organism chromosomes with added
information.</p>
<p>These classes are meant to model the drawing of pictures of
chromosomes. This can be useful for lots of things, including displaying
markers on a chromosome (ie. for genetic mapping) and showing syteny
between two chromosomes.</p>
<p>The structure of these classes is intended to be a Composite, so that
it will be easy to plug in and switch different parts without breaking
the general drawing capabilities of the system. The relationship between
classes is that everything derives from _ChromosomeComponent, which
specifies the overall interface. The parts then are related so that an
Organism contains Chromosomes, and these Chromosomes contain
ChromosomeSegments. This representation differents from the canonical
composite structure in that we don't really have 'leaf' nodes here -- all
components can potentially hold sub-components.</p>
<p>Most of the time the ChromosomeSegment class is what you'll want to
customize for specific drawing tasks.</p>
<p>For providing drawing capabilities, these classes use reportlab:</p>
<p>http://www.reportlab.com</p>
<p>This provides nice output in pdf, which it should be possible to
convert to a wide variety of other formats.</p>
<p>There is also the start of support for other formats (such as eps),
but it doesn't seem to be quite working right for me yet...</p>
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<a href="Bio.Graphics.BasicChromosome._ChromosomeComponent-class.html" class="summary-name" onclick="show_private();">_ChromosomeComponent</a><br />
Base class specifying the interface for a component of the system.
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<a href="Bio.Graphics.BasicChromosome.Organism-class.html" class="summary-name">Organism</a><br />
Top level class for drawing chromosomes.
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<a href="Bio.Graphics.BasicChromosome.Chromosome-class.html" class="summary-name">Chromosome</a><br />
Class for drawing a chromosome of an organism.
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<a href="Bio.Graphics.BasicChromosome.ChromosomeSegment-class.html" class="summary-name">ChromosomeSegment</a><br />
Draw a segment of a chromosome.
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<a href="Bio.Graphics.BasicChromosome.TelomereSegment-class.html" class="summary-name">TelomereSegment</a><br />
A segment that is located at the end of a linear chromosome.
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