[graphviz-interest] making layouts more beautiful

The attached dot file renders nearly perfectly on my mac.  However, there
are some imperfections, and I'm
wondering if there is any way to ameliorate them (see annotated view,
below):

(1) Some edge labels overlap.  See red circle for an example.
(2) Some edges are too close together.  See blue circle, the only example
in this case.

Note that the dot file includes "layout=neato", which in this example does
an excellent job of presenting
the global 'geometry'.

Context (only if you're curious).  This graph represents a DNA sequence
assembly, which in turn is representing
the same region on two nearly identical (homologous) chromosomes, stuck
together.  It is an essentially
linear object, however in this case there is a long repeat in the genome
(here seen as the big circle), and
the genome goes around it three times.

I would be very grateful if anyone has any thoughts about this, either with
regards to manual tweaks to make
this example render better, or general improvements.  I would also be happy
to provide further fodder if
anyone is intrigued by the scientific problem and would be interested in
collaborating.

Thanks very much,

David Jaffe

[image: Inline image 1]

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