efg’s R Notes: EBImage Bioconductor Package

RNotes

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Topics

	Topic
	Intro to EBImage

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Expanded Help Pages

	Help	Comments
	Binary Segmentation
	Color
	Combining Images
	Draw Circle
	Features
	- Basic Features
	- Haralick Features	Technical Details
	- Moment Features
	- Shape Features
	Filters
	Filling Holes and Regions
	Histogram Equalization
	Image Class
	Image Stack
	Image Display and I/O
	Intensity values linear scaling
	Local Curvature
	Morphological Operations
	Object Removal and Re-Indexing
	Oriented Contours
	Propagate
	Paint Objects
	Thresholding
	Tiling / Untiling
	Transformations
	Watershed transformation and watershed based object detection

References

• Pau G, Fuchs F, Skylar O, Boutros M, Huber W. EBImage–an R package for image processing with applications to cellular phenotypes. Bioinformatics, April 2010. PubMed.

• Watters O, Pickering M, Murphy R, Murphy KJ, O’Connor JJ. Automated analysis of intracellular calcium fluorescence in rat organotypic hippocampal cultures: comparison to a manual, observer based method. Journal of Neuroscience Methods. Feb. 2014. PubMed.

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efg
2015-01-25 2055