Clonality: Clonality testing

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

Author
Irina Ostrovnaya
Date of publication
None
Maintainer
Irina Ostrovnaya <ostrovni@mskcc.org>
License
GPL-3
Version
1.22.0

View on Bioconductor

Man pages

ave.adj.probes
Averaging of adjacent probes in copy number arrays
chromosomePlots
Per-chromosome plots of the copy number arrays from a...
clonality.analysis
Clonality testing using copy number data
Clonality-internal
Internal Clonality functions
Clonality-package
Clonality testing
ECMtesting
Clonality testing of >=3 tumors using Extended Concordant...
genomewidePlots
Plot of the genomewide copy number profiles of a pair of...
histogramPlot
Histrograms of Log-Likelihood Ratios
LOHclonality
Clonality testing using LOH (Loss of Heterozygosity) profiles
LRtesting3or4tumors
Clonality testing of 3 or 4 tumors using Likelihood model...
splitChromosomes
Chromosome splitting

Files in this package

Clonality/DESCRIPTION
Clonality/NAMESPACE
Clonality/R
Clonality/R/CM.pvalue.R
Clonality/R/ECMtesting.R
Clonality/R/GL.R
Clonality/R/LOHclonality.R
Clonality/R/LRpv.R
Clonality/R/LRtesting3or4tumors.R
Clonality/R/LRts.R
Clonality/R/ave.adj.probes.R
Clonality/R/calc.freq.R
Clonality/R/calculateLR.R
Clonality/R/chromosomePlots.R
Clonality/R/class.all.R
Clonality/R/clonality.analysis.R
Clonality/R/complexts.R
Clonality/R/func.R
Clonality/R/genomewidePlots.R
Clonality/R/get.oneseg.bdry.R
Clonality/R/grantLR.R
Clonality/R/histogramPlot.R
Clonality/R/indiv.test.R
Clonality/R/oneseg.R
Clonality/R/prettyplot.R
Clonality/R/refvector.R
Clonality/R/segment1.R
Clonality/R/splitChromosomes.R
Clonality/R/tumors.R
Clonality/build
Clonality/build/vignette.rds
Clonality/inst
Clonality/inst/doc
Clonality/inst/doc/Clonality.R
Clonality/inst/doc/Clonality.Rnw
Clonality/inst/doc/Clonality.pdf
Clonality/man
Clonality/man/Clonality-internal.Rd
Clonality/man/Clonality-package.Rd
Clonality/man/ECMtesting.Rd
Clonality/man/LOHclonality.Rd
Clonality/man/LRtesting3or4tumors.Rd
Clonality/man/ave.adj.probes.Rd
Clonality/man/chromosomePlots.Rd
Clonality/man/clonality.analysis.Rd
Clonality/man/genomewidePlots.Rd
Clonality/man/histogramPlot.Rd
Clonality/man/splitChromosomes.Rd
Clonality/vignettes
Clonality/vignettes/Clonality.Rnw
Clonality/vignettes/Clonality.bib