BrainGraph < MouseBIRN

heng - 08 Mar 2006

---+++BrainGraph

---++History

BrainGraph was originally developed by Ivo using GML format using a
graph display.  Then Fotios Konstantinidis developed a HyperTree
viewer.  Ivo's LONI LOVE program has the ability to read and display
BrainGraph files in GML format.  Then Allan et al wanted it to be in
XML format, and Heng made the conversion.  Shiva and MBAT can read
in XML format of the BrainGraph.

---++XML Format (.bgx)

As the BrainGraph name implies, it is a direct graph.  It contains
both nodes and edges.  Nodes are individual structures, and edges
specify the relationships among the structures.  Typically the relationship
(and currently the only one) is the anatomical containment relationship.

A simple over view of the file format contains the following:

<verbatim>
<braingraph atlas="Swanson1998">
    <label index="20" abbreviation="BR" name="Brain" color="#808080" />
    <label index="22" abbreviation="CH" name="Cerebrum" color="#7fff00" />
    <edge relationship="anatomical containment" head="20" tail="22" />
</braingraph
</verbatim>

*&lt;braingraph>* is the document tag and thus required.  *atlas* is the name of the
atlas and required.

*&lt;label>* is is a node in the graph representing a structure.  *index* is the
unique index value of the structure.  *abbreviation* is the abbreviation of the
structure and *name* is the full name of the structure.  *color* field is for
viewing purpose and is required.

*&lt;edge>* describes a relationship between two structures.  It is directed,
and hence *head* and *tail* attributes, which are the index value of the structures
of the interest.  Currently, the only *relationship* interpreted is "anatomical containment".

Heng is working on to bring in the following tag:

*&lt;meta>* which is used to contain meta data, which gives BrainGraph authors the
ability to make note on the file.  It is in the following format:

<verbatim>
<braingraph atlas="Swanson1998">
    <meta>
        <author>Allan</author>
        <date>Jan 1, 2004</date>
        <description>...</description>
        <!-- and other texts in any invented tags -->
    </meta>
    ...
</braingraph>
</verbatim>
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