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View Code? Open in Web Editor NEW:microscope::deciduous_tree::computer: hIPNAT: Image Processing for NeuroAnatomy and Tree-like structures (Archived)
License: GNU General Public License v3.0
:microscope::deciduous_tree::computer: hIPNAT: Image Processing for NeuroAnatomy and Tree-like structures (Archived)
License: GNU General Public License v3.0
From @tferr on March 7, 2016 4:38
It should be more obvious for users that results assume images with a single tree. Discussed here.
Copied from original issue: tferr/Scripts#15
Things seem to work ok if 2D traces, but not with 3D traces...
We should include a routine for removal of pipette artifacts for neurons intracellularly filled during patch recordings. In the past this may have been implemented, including
Right now when analyzing 3D arbors, we infer orders from Z-projections. While in practice this probably works fine, there is really no reason to do so. See also #2.
From @tferr on January 2, 2015 19:34
This is just an immediate followup to #4. Now that root-detection is working, it should be extended to 3D.
In order to implement it, we will need to:
Copied from original issue: tferr/Scripts#8
Reported by Volko Straub:
converting the Traces file to a SWC file, results in a breakup of the original trace and when it is re-assembled with the 'Render multiple SWC files', the individual components are placed in different positions. This is illustrated in the attached screen shot at the bottom, which shows the original SNT traces on the left and the output from 'Render multiple SWC files' of the same Traces file after converting to SWC files on the right.
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