seglengths

Calculate length of all segments in neuron

NeuroAnatomy Toolbox (nat) enables analysis and visualisation of 3D
biological image data, especially traced neurons. Reads and writes 3D images
in NRRD and 'Amira' AmiraMesh formats and reads surfaces in 'Amira' hxsurf
format. Traced neurons can be imported from and written to SWC and 'Amira'
LineSet and SkeletonGraph formats. These data can then be visualised in 3D
via 'rgl', manipulated including applying calculated registrations, e.g.
using the 'CMTK' registration suite, and analysed. There is also a simple
representation for neurons that have been subjected to 3D skeletonisation
but not formally traced; this allows morphological comparison between
neurons including searches and clustering (via the 'nat.nblast' extension
package).

Gregory Jefferis

NeuroAnatomy Toolbox for Analysis of 3D Image Data

James Manton

Dominik Krzeminski

seglengths function

<dl><dt>x</dt>
<dd>A neuron</dd>
<dt>all</dt>
<dd>Whether to calculate lengths for all segments when there are 
multiple subtrees (default: <code>FALSE</code>)</dd>
<dt>flatten</dt>
<dd>Whether to flatten the lists of lists into a single list when 
<code>all=TRUE</code></dd>
<dt>sumsegment</dt>
<dd>Whether to return the length of each segment (when 
<code>sumsegment=TRUE</code>, the default) or a list of vectors of lengths of each
individual edge in the segment.</dd></dl>

Arguments

Calculate length of all segments in neuron — seglengths

<dl>

<dt>x</dt>
<dd>A neuron</dd>


<dt>all</dt>
<dd>Whether to calculate lengths for all segments when there are 
multiple subtrees (default: <code>FALSE</code>)</dd>


<dt>flatten</dt>
<dd>Whether to flatten the lists of lists into a single list when 
<code>all=TRUE</code></dd>


<dt>sumsegment</dt>
<dd>Whether to return the length of each segment (when 
<code>sumsegment=TRUE</code>, the default) or a list of vectors of lengths of each
individual edge in the segment.</dd>

</dl>

seglengths: Calculate length of all segments in neuron

Description

Usage

Value

Arguments

Details

See Also

Examples