User Tools

Site Tools


imagej_introduction

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Next revision
Previous revision
imagej_introduction [2011/08/24 16:38]
kthorn created
imagej_introduction [2011/08/24 11:40] (current)
Line 13: Line 13:
  
 For overview of basic image manipulation:​ **25 Image** For overview of basic image manipulation:​ **25 Image**
 +
 includes Brighness/​Contrast,​ Thresholding,​ Color thresholding,​ Splitting/​Merging channels, Stacks, ie maxProjections,​ reslicing, 3D volume etc includes Brighness/​Contrast,​ Thresholding,​ Color thresholding,​ Splitting/​Merging channels, Stacks, ie maxProjections,​ reslicing, 3D volume etc
  
 For overview of basic image processing: **26 Process** For overview of basic image processing: **26 Process**
 +
 This is a great introduction to basic image processing methods available in ImageJ and how they work. It's a great starting point. The next step is then to go to the plugins page and look around what other tools are already available (http://​rsbweb.nih.gov/​ij/​plugins/​index.html) This is a great introduction to basic image processing methods available in ImageJ and how they work. It's a great starting point. The next step is then to go to the plugins page and look around what other tools are already available (http://​rsbweb.nih.gov/​ij/​plugins/​index.html)
  
Line 50: Line 52:
  
 === Useful shortcuts/​tips === === Useful shortcuts/​tips ===
-always duplicate your file before playing with it. Will allow you to keep the original file open and repeat if you make a mistake. And will ensure you don't accidentally alter the original data +  * always duplicate your file before playing with it. Will allow you to keep the original file open and repeat if you make a mistake. And will ensure you don't accidentally alter the original data 
-command-shift-T for threshold window +  ​* ​command-shift-T for threshold window 
-command-shift-C for the brightness/​contrast window +  ​* ​command-shift-C for the brightness/​contrast window 
-command-shift-D for duplicate +  ​* ​command-shift-D for duplicate 
-command-shift-E for "​remake previously selected shape"​ +  ​* ​command-shift-E for "​remake previously selected shape"​ 
-T to add a shape to the ROI manager +  ​* ​T to add a shape to the ROI manager 
-command-R inside macro editor to run a macro or a selected line in the macro +  ​* ​command-R inside macro editor to run a macro or a selected line in the macro 
-up and down arrows to mag up or down +  ​* ​up and down arrows to mag up or down 
-left/right arrows to scroll through a one-color z-stack+  ​* ​left/right arrows to scroll through a one-color z-stack
  
  
 6. Other macro functions of use that came up during class, all described on the MacroFunction list webpage: 6. Other macro functions of use that came up during class, all described on the MacroFunction list webpage:
-getFileList(path) +  * getFileList(path) 
-listname.length +  ​* ​listname.length 
-listname[i] +  ​* ​listname[i] 
-substring(string,​start,​stop) +  ​* ​substring(string,​start,​stop) 
-indexOf(name,​ firstInstanceOf) +  ​* ​indexOf(name,​ firstInstanceOf) 
-roiManager(cmd) +  ​* ​roiManager(cmd) 
-runMacro(name) +  ​* ​runMacro(name) 
-setAutoThreshold(method) and getThreshold(lower,​ upper) +  ​* ​setAutoThreshold(method) and getThreshold(lower,​ upper) 
-setResult("​Column",​ row, value) +  ​* ​setResult("​Column",​ row, value) 
-SetPixel(x,​y,​value) +  ​* ​SetPixel(x,​y,​value) 
-...and many more+  ​* ​...and many more
  
  
/var/www/html/dokuwiki/data/pages/imagej_introduction.txt · Last modified: 2011/08/24 11:40 (external edit)