Difference between revisions of "Simple Neurite Tracer: Accurate point placement"

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== Simple Neurite Tracer: Accurate point placement ==
#REDIRECT [[SNT:_Step-By-Step_Instructions#Accurate_Point_Placement]]
Note that there were recent changes that made the use of the plugin in three pane mode much easier, so make sure that you have an up-to-date Fiji by running "Help > Update Fiji".
=== Summary ===
Sometimes people have reported problems with placing points accurately.  Many of these issues can be resolved just by placing the points when:
* Using the "Three pane view"
* Zoomed in to 600% or so
A step by step guide is given below:
=== Step-by-step ===
When starting up, make sure that "Three pane view" is turned on:
Find the approximate location of your start point by moving your mouse in the XY window, holding down Shift to synchronize the view in the other panes:
When you press "+" to zoom in, all the panes will zoom in on the point that the crosshairs is over, so each time you press "+", make sure you move your mouse pointer so that it's still over the structure of interest:
Then click to start the path:
Zoom out again with the "-" key, and similarly zoom in on the next point you want to be on your path to place it precisely:
The path along the neuron may not follow the centre line:
... but you can later improve that with the "Fit Volume" option, which tries to fix the midline and radius to sub-voxel accuracy:

Latest revision as of 22:12, 18 May 2019