neurom.core._soma.SomaNeuromorphoThreePointCylinders¶

class neurom.core._soma.SomaNeuromorphoThreePointCylinders(points)[source]¶

Bases: neurom.core._soma.SomaCylinders

NeuroMorpho compatible soma

Reference:

Quote (Tue Feb 28 14:26:56 CET 2017): The first point constitutes the center of the soma, with coordinates (xs, ys, zs) corresponding to the average of all the points in the single contour. An equivalent radius (rs) is computed as the average distance of each point of the single contour from this center. The first point is assigned parent ID -1 as is standard for the root in the SWC format. The second and third soma points, as well as all starting points (roots) of dendritic and axonal arbors have this first point as the parent (parent ID 1). The x and z coordinates as well as the radius of both the second and third soma points are the same as that of the first point. The y coordinates of the second and third points are shifted by -rs and +rs, respectively (Figure 2). The surface area of this soma cylinder equals the surface area of a sphere of radius rs.

Methods

`__init__`
`iter`	Iterator to soma contents

Attributes

`center`	Obtain the center from the first stored point
`points`	Get the set of (x, y, z, r) points this soma