SectorAnalysisToolbox Documentation: Difference between revisions

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='''1''' Analysing 2D shapes of cell clones=
='''1''' Analysing 2D shapes of cell clones=


'''How to use the tutorial.''' First [[SectorAnalysisToolbox Download|download and install the SectorAnalysisToolbox ]]. A zip file containing the project (''Leaf growth'') should be loaded. Then, from Matlab, change directory into the project and launch the SectorAnalysisToolbox  
'''How to use the tutorial.''' First [[SectorAnalysisToolbox Download|download and install the SectorAnalysisToolbox ]]. A zip file containing the project (''Leaf growth'') should be loaded. Then, from Matlab, change directory into the project and launch the SectorAnalysisToolbox
 
The process of analysing a set of images is:-
{| border="0" cellpadding="5" cellspacing="3"
|- valign="top"
|width="700pt"|
#Create a new project. AAMToolbox project names are automatically prefaced with PRJ_. They have a particular directory structure and the images to be analysed need to be copied into the subdirectory called Cropped. It is best if they are all the same size.
#*[[AAMToolbox new project|Tutorial on making a new project.]]
#Create a point model template. Points are placed around the object of interest, i.e. around a face or leaf. The set of points constitute the '''point model'''.  Every image will be marked up in the same way.
#*[[AAMToolbox template|Tutorial on point model template.]]
#Move the points to the corresponding positions in each image in turn. The positions must'' '''correspond''' to the same material points'' in each image, i.e. the tip of the leaf, the corner of an eye, or halfway along a line between the two ends of the mouth.
#*[[AAMToolbox point model editor|Tutorial on point model editor.]]
#Generate the shape model using principal component analysis (PCA)
#*[[AAMToolbox statistical model generator|Tutorial on statistical model generator.]]
#View the result by varying each important component in turn. We call this ''walking'' the shape model. This movie shows a walk.
#*[[AAMToolbox viewing statistical model|Tutorial on viewing statistical model.]]
|width="300pt"|<wikiflv width="300" height="300" logo="false"  loop="true" background="white">ShapeVectorWalkShowShape-21-Jun-2011-14-28-24 VD.flv|ShapeVectorWalkShowShape-21-Jun-2011-14-28-24 VD_First.png</wikiflv>
|}
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Revision as of 12:39, 9 March 2012

Go back to software

The models shown in these tutorials illustrate features of the SectorAnalysisToolbox software. Viewing these pages. Some versions of Firefox and Explorer do not create satisfactory prints even though you can view the pages with no problems. Chrome does appear to produce good printouts.

Using the SectorAnalysisToolbox ' to analyse the shapes of cell clones'

1 Analysing 2D shapes of cell clones

How to use the tutorial. First download and install the SectorAnalysisToolbox . A zip file containing the project (Leaf growth) should be loaded. Then, from Matlab, change directory into the project and launch the SectorAnalysisToolbox

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