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 |

**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

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

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