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DiNAMIC.Duo
View on CRAN: Click
here
Download and install DiNAMIC.Duo package within the R console
Install from CRAN:
install.packages("DiNAMIC.Duo")
Install from Github:
library("remotes")
install_github("cran/DiNAMIC.Duo")
Install by package version:
library("remotes")
install_version("DiNAMIC.Duo", "1.0.2")
Attach the package and use:
library("DiNAMIC.Duo")
Maintained by
Vonn Walter
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-09-29
Latest Update: 2023-03-02
Description:
In tumor tissue, underlying genomic instability can lead to DNA copy number alterations,
e.g., copy number gains or losses. Sporadic copy number alterations occur randomly throughout the
genome, whereas recurrent alterations are observed in the same genomic region across multiple
independent samples, perhaps because they provide a selective growth advantage. Here we use
cyclic shift permutations to identify recurrent copy number alterations in a single cohort or
recurrent copy number differences in two cohorts based on a common set of genomic markers.
Additional functionality is provided to perform downstream analyses, including the creation of
summary files and graphics. DiNAMIC.Duo builds upon the original DiNAMIC package of Walter et al.
(2011) and leverages the theory developed in Walter et al.
(2015) . An article describing DiNAMIC.Duo by Walter et al. (2022)
can be found at .
How to cite:
Vonn Walter (2021). DiNAMIC.Duo: Finding Recurrent DNA Copy Number Alterations and Differences. R package version 1.0.2, https://cran.r-project.org/web/packages/DiNAMIC.Duo
Other packages that cited DiNAMIC.Duo R package
View DiNAMIC.Duo citation profile
Other R packages that DiNAMIC.Duo depends,
imports, suggests or enhances
Functions, R codes and Examples using
the DiNAMIC.Duo R package
Some associated functions: cyclicNullR . cyclicShiftColR . dataPrep . genomeChrPlot . genomePlot . luadSubset . luscSubset . miniconda_installation . pD . peelingOne . peelingOneIterate . peelingTwo . peelingTwoIterate . resultsProcess .
Some associated R codes: cyclicNullR.R . cyclicShiftColR.R . dataPrep.R . genomeChrPlot.R . genomePlot.R . luadSubset.R . luscSubset.R . onAttach.R . pD.R . peelingOne.R . peelingOneIterate.R . peelingTwo.R . peelingTwoIterate.R . resultsProcess.R . Full DiNAMIC.Duo package functions and examples
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