image.RGList
(Package: Ringo) :
Function to visualize spatial distribution of raw intensities
Function to visualize spatial distribution of raw intensities on NimbleGen Oligoarrays. Requires RGList with component genes complete with genes$X and genes$X coordinates of probes on array. arrayImage is a synonym of image.RGList.
asExprSet
(Package: Ringo) :
converts a Ringo MAList into an ExpressionSet
Function to convert an object of class MAList into an object of class ExpressionSet. Note that the otherwise optional targets component is required in this case to generate the phenoData of the new ExpressionSet.
cherByThreshold
(Package: Ringo) :
Function to identify chers based on thresholds
Given a vector of probe positions on the chromosome, a vector of smoothed intensities on these positions, and a threshold for intensities to indicated enrichment, this function identifies Chers (ChIP-enriched regions) on this chromosome.
chipAlongChrom
(Package: Ringo) :
Visualize ChIP intensities along the chromosome
This function can visualize the array intensities from a ChIP chip experiment for a chromosomal region or the whole chromosome. It's based on the plotAlongChrom function from the package tilingArray, but provides a different visualization.
chipAlongChrom1
(Package: Ringo) :
Visualize ChIP intensities along the chromosome
This function can visualize the array intensities from a ChIP chip experiment for a chromosomal region or the whole chromosome. It's loosely based on the plotAlongChrom function from the package tilingArray, but provides a different visualization.
providing 
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