The Worm Project
From FarsightWiki
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(→Tracking: ading more info on parameters and an example) |
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===Tracking=== | ===Tracking=== | ||
| − | Tracker | + | Tracker "StringBeforeLabeledImageFilename" "StringBeforeRawImageFilename" StartFrame EndFrame |
| + | |||
| + | '''Example''' | ||
| + | |||
| + | To track worms with the following raw 8-bit images... | ||
| + | |||
| + | C:\data\Im0000.tif | ||
| + | C:\data\Im0001.tif | ||
| + | C:\data\Im0002.tif | ||
| + | C:\data\Im0003.tif | ||
| + | C:\data\Im0004.tif | ||
| + | |||
| + | ...and associated labeled or binary images... | ||
| + | C:\data\LabeledIm0000.tif | ||
| + | C:\data\LabeledIm0001.tif | ||
| + | C:\data\LabeledIm0002.tif | ||
| + | C:\data\LabeledIm0003.tif | ||
| + | C:\data\LabeledIm0004.tif | ||
| + | |||
| + | Tracker "C:\data\Im" "C:\data\LabeledIm" 0 4 | ||
* Roussel R, Morton CA, Finger FP, Roysam B, '''“A Computational Model for C. elegans Locomotory Behavior: Application to Multi-Worm Tracking,”''' IEEE Transactions on Biomedical Engineering. 2007 Oct; 54(10):1786-97. | * Roussel R, Morton CA, Finger FP, Roysam B, '''“A Computational Model for C. elegans Locomotory Behavior: Application to Multi-Worm Tracking,”''' IEEE Transactions on Biomedical Engineering. 2007 Oct; 54(10):1786-97. | ||
Revision as of 14:26, 17 April 2009
Warning! This page is under construction
Contents |
Executables
Segmentation
Detection
Detect [LabeledImageFilename] [OutputFilename]
Tracking
Tracker "StringBeforeLabeledImageFilename" "StringBeforeRawImageFilename" StartFrame EndFrame
Example
To track worms with the following raw 8-bit images...
C:\data\Im0000.tif C:\data\Im0001.tif C:\data\Im0002.tif C:\data\Im0003.tif C:\data\Im0004.tif
...and associated labeled or binary images...
C:\data\LabeledIm0000.tif C:\data\LabeledIm0001.tif C:\data\LabeledIm0002.tif C:\data\LabeledIm0003.tif C:\data\LabeledIm0004.tif
Tracker "C:\data\Im" "C:\data\LabeledIm" 0 4
- Roussel R, Morton CA, Finger FP, Roysam B, “A Computational Model for C. elegans Locomotory Behavior: Application to Multi-Worm Tracking,” IEEE Transactions on Biomedical Engineering. 2007 Oct; 54(10):1786-97.
- Reid DB, "An algorithm for tracking multiple targets," IEEE Transactions on Automatic Control. 1979 Dec; 24(6):843-854.
Behaviors
- Pierce-Shimomura JT, Morse TM, Lockery SR, "The Fundamental Role of Pirouettes in Caenorhabditis elegans Chemotaxis," The Journal of Neuroscience. 1999 Nov; 19(21):9557–9569.
