IDProbes
(Package: snapCGH) :
Interactive version of genomePlot
Interactive version of genomePlot. Allows the user to click near a probe and the name of that probe will be displayed next to it.
● Data Source:
BioConductor
● Keywords: hplot
● Alias: IDProbes
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A virtual class including the data classes RGList, MAList and SegList, all of which typically contain large quantities of numerical data in vector, matrices and data.frames.
● Data Source:
BioConductor
● Keywords: classes, data
● Alias: LargeDataObject-class, show,LargeDataObject-method
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SegList-class
(Package: snapCGH) :
Segmentation States - class
A list based class for storing the results of a segmentation algorithm. They are generally created by running one of the following functions runHomHMM, runGLAD or runDNAcopy on an MAList object.
● Data Source:
BioConductor
● Keywords: classes, data
● Alias: SegList-class, [.SegList, print.SegList, show,SegList-method
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Viterbi.five
(Package: snapCGH) :
A scaled Viterbi algorithm for allocating clones to one of five underlying states.
A work horse of the fit.model function. It uses a scaled version of the Viterbi algorithm to allocate clones to one of five underlying states as fitted using a heterogeneous HMM.
● Data Source:
BioConductor
● Keywords: misc
● Alias: Viterbi.five
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Viterbi.four
(Package: snapCGH) :
A scaled Viterbi algorithm for allocating clones to one of four underlying states.
A work horse of the fit.model function. It uses a scaled version of the Viterbi algorithm to allocate clones to one of four underlying states as fitted using a heterogeneous HMM.
● Data Source:
BioConductor
● Keywords: misc
● Alias: Viterbi.four
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Viterbi.three
(Package: snapCGH) :
A scaled Viterbi algorithm for allocating clones to one of two underlying states.
A work horse of the fit.model function. It uses a scaled version of the Viterbi algorithm to allocate clones to one of three underlying states as fitted using a heterogeneous HMM.
● Data Source:
BioConductor
● Keywords: misc
● Alias: Viterbi.three
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Viterbi.two
(Package: snapCGH) :
A scaled Viterbi algorithm for allocating clones to one of two underlying states.
A work horse of the fit.model function. It uses a scaled version of the Viterbi algorithm to allocate clones to one of two underlying states as fitted using a heterogeneous HMM.
● Data Source:
BioConductor
● Keywords: misc
● Alias: Viterbi.two
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cbind
(Package: snapCGH) :
Combine SegList Objects
Combine a series of SegList objects.
● Data Source:
BioConductor
● Keywords: manip
● Alias: cbind.SegList, rbind.SegList
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compareSegmentations
(Package: snapCGH) :
Function for comparing segmentation methods to a known truth
This function takes a SegList and compares the breakpoints indicated in other SegLists with this original one.
● Data Source:
BioConductor
● Keywords: manip
● Alias: compareBreakPoints, compareSegmentations
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dim
(Package: snapCGH) :
Retrieve the Dimensions of an RGList, MAList or SegList Object
Retrieve the number of rows (genes) and columns (arrays) for an RGList, MAList or SegList object.
● Data Source:
BioConductor
● Keywords: array
● Alias: dim, dim,SegList-method, dim.MAList, dim.RGList, dim.SegList, length, length,SegList-method, length.MAList, length.RGList, length.SegList
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