GulyasTree

Overview

The original format for data contained in the Gulyas Archive

 Format specification:

Encoding:  ASCII text
Limitations: Binary branch points. Point soma. No markers. No spines.

The file consists of  a header which enumerates the different types of segment from which the tree is formed.  It takes the form

Segment types
   1           <diameter>     <description of segment>
   2           <diameter>     <description of segment>
   .
   .
****************************

The row of '*' signifies the end of the header.

The next line contains the number of data points which will follow (actually, it is the number of data point, not counting the root point of each tree in the data set.)

Subsequent lines each represent a single neuron sample point with six data items.


 1
 2
 3
 4
 5
 6
data type
 x position
 y position
 z position
 diameter

 point type
 segment type
data value
 'x', 'y', 'z' are spatial co-ordinates, given in micrometers.
diameter is also given in micrometers


 1 - tree origin
4 - continuous point
7 - branch point
8 - terminal
 One of the segment types as enumerated in the header.


Note that sample connectivity is implicit in the data - after a termination point, the next point in the data is connected to the first incomplete binary branch point encountered when ascending the tree hierarchy.

References

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Links

Gulyas archive -   http://www.koki.hu/~gulyas/ca1cells/cellfiles.htm
Original format specification -   http://www.koki.hu/~gulyas/ca1cells/treeformat.htm


Examples

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