R Graphical Manual

Last data update: 2014.03.03

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Results 1 - 10 of 11 found.
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Clonality-internal (Package: Clonality) : Internal Clonality functions

Internal functions of package Clonality.

● Data Source: BioConductor
● Keywords: internal
● Alias: CM.pvalue, GL, LRpv, LRts, calc.freq, calculateLR, class.all, complexts, func, get.oneseg.bdry, grantLR, indiv.test, oneseg, prettyplot, refvector, segment1
● 0 images

Clonality-package (Package: Clonality) :

Statistical tests for clonality versus independence of tumors from the same patient based on their LOH or genomewide copy number profiles.

● Data Source: BioConductor
● Keywords:
● Alias: Clonality, Clonality-package
● 0 images

(Package: Clonality) :

Function to test clonality of three and more tumors from the same patient based on their LOH profiles. This function implements Extended Concordant Mutations for all possible subsets of tumors from the same patient and minP multiplicity adjustment using simulated tumors.

● Data Source: BioConductor
● Keywords:
● Alias: ECMtesting
● 0 images

(Package: Clonality) :

Function to test clonality of two tumors from the same patient based on their LOH profiles. This function implements Concordant Mutations and Likelihood Ratio tests.

● Data Source: BioConductor
● Keywords:
● Alias: LOHclonality
● 0 images

(Package: Clonality) :

Function to test clonality of 3 or 4 tumors from the same patient based on their LOH profiles.

● Data Source: BioConductor
● Keywords:
● Alias: LRtesting3or4tumors
● 0 images

ave.adj.probes (Package: Clonality) :

For each sample the log-ratios at each consecutive K number of probes are averaged.

● Data Source: BioConductor
● Keywords:
● Alias: ave.adj.probes
● 0 images

chromosomePlots (Package: Clonality) :

The function produces a sequence of plots for each chromosome with one-step segmented data of all samples of a particular patient.

● Data Source: BioConductor
● Keywords:
● Alias: chromosomePlots
● 0 images

clonality.analysis (Package: Clonality) : Clonality testing using copy number data

Function to test clonality of two tumors from the same patient based on their genomewide copy number profiles. This function calculates likelihood ratios and the reference distribution under the hypothesis of independence.

● Data Source: BioConductor
● Keywords:
● Alias: clonality.analysis
● 0 images

genomewidePlots (Package: Clonality) :

Plot contains genomewide profiles from a pair of tumors. It uses the output from the function clonality.analysis().

● Data Source: BioConductor
● Keywords:
● Alias: genomewidePlots
● 0 images

histogramPlot (Package: Clonality) :

Function produces the histograms of the within-patient and between-patient log-Likelihood Ratios.

● Data Source: BioConductor
● Keywords:
● Alias: histogramPlot
● 0 images