URL: http://www.bioconductor.org/packages/release/bioc/html/spotSegmentation.html
Proper Citation: spotSegmentation (RRID:SCR_001298)
Description: Model-based software package for processing microarray images so as to estimate foreground and background intensities. The method starts with a very simple but effective automatic gridding method, and then proceeds in two steps. The first step applies model-based clustering to the distribution of pixel intensities, using the Bayesian Information Criterion (BIC) to choose the number of groups up to a maximum of three. The second step is spatial, finding the large spatially connected components in each cluster of pixels. The method thus combines the strengths of the histogram-based and spatial approaches. It deals effectively with inner holes in spots and with artifacts. It also provides a formal inferential basis for deciding when the spot is blank, namely when the BIC favors one group over two or three.
Abbreviations: spotSegmentation
Resource Type: data processing software, software resource, image processing software, software application
Defining Citation: PMID:15845656
Keywords: gridding, segmentation, microarray, preprocessing, quality control, two channel
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