All reports will open a table of text that can be copy/pasted into another program for further analysis.

There are three types of reports: stack reports, segment reports, and map reports.

Stack Reports

Reports can be generated directly from each stack window.

Tip. Use keyboard '[' in any stack window to open and close the left stack db panel.

Line Segments

  • Keyboard ‘e’ In the ‘Line Segments’ section of the main stack db panel to display a summary of each segment.
  • Keyboard ‘E’ In the ‘Line Segments’ section of the main stack db panel to display the entire line (all 3D points)

Points (stack db)

  • Keyboard ‘e’ In the ‘Points’ section of the main stack db panel to display the stack db as a table.
  • Keyboard ‘i’ In the ‘Points’ section of the main stack db panel to display intensity analysis as a table.

Segment Reports

Segment Report

A segment report display statistics for each segment in a stack. It displays the length of the segment, the number and density of spines, the x/y/z position of the segment, and the number of each user spine type (e.g. mushroom, stubby, etc.). A segment report can be generated for individual stacks or a map.

To generate a segment report for each segment in a stack

  • In a stack window, keyboard ‘o’ for output report.
  • In the Stack Browser, select a stack in the list, keyboard ‘o’ for output report.
  • In the Stack Browser, right click a stack in the list of stacks and select ‘Segment Report’.
  • In the Stack Browser, right click a folder in the list folders (on the left) and select ‘Segment Report (All Stack)’.

The columns in a segment report are as follows

Name Meaning
numSpines Total number of spines = goodSpines + badSpines
goodSpines Number of good spines.
badSpines Number of bad spines.
totalLen (2D) Total segment length (um)
goodLen (2D) Segment length (um) from most distal good spines.
totalDen (2D) Total density of all spines = numSpines / totalLen
goodDen (2D) Density of good spines = goodSpines / goodLen
totalLen3d (3D)
goodLen3d (3D)
totalDen3d (3D)
goodDen3d (3D)
zMin  
zMax  
zMean  
zMedian  
zAngle  
xyAngle  
tort  
xMin  
xMax  
xMean  
xMedian  
yMin  
yMax  
yMean  
yMedian  
nUnknown Number of spines with userType ‘Unknown’
nMushroom Number of spines with userType ‘Mushroom’
nFilapodia Number of spines with userType ‘Filapodia’
nLong Number of spines with userType ‘Long’
nStubby Number of spines with userType ‘Stubby’

Map Reports

Dynamics Report

A dynamics report is used for a map. For each session in a map, it will calculate the length of each segment (um), the density of spines, the number of added spines, the number of subtracted spines, etc., etc.

In any map plot, right-click and select ‘Dynamics Report’. If the map plot is displaying ‘All Segment’, a table for each segment will be opened. Otherwise, one table for the current ‘Map Segment ID’ will be opened.

Name Meaning
numSpines Total number of spines, goodSpines + badSpines
goodSpines Total number of good spines
badSpines Total number of bad spines
   
totalLen Total segment length (um)
goodLen Segment length between most distal good spines.
   
totalDen Total density = numSpines / totalLen
goodDen Density of good spines = goodSpines / goodLen
   
nAdd Number of added spines.
nSub Number of subtracted spines (at the current session)
nSub2 Number of subtracted spines (from the previous session)
tor Turn-over-ratio =
   
pAdd Percent added = nAdd / goodSpines from previous session * 100
pSub Percent subtracted =
dAdd Density added =
dSub Density subtracted =
   
np New persistent =
nt New transient =
lp Lost persistent =
lt Lost transient =