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Rediscover  

Identify Mutually Exclusive Mutations
View on CRAN: Click here


Download and install Rediscover package within the R console
Install from CRAN:
install.packages("Rediscover")

Install from Github:
library("remotes")
install_github("cran/Rediscover")

Install by package version:
library("remotes")
install_version("Rediscover", "0.3.2")



Attach the package and use:
library("Rediscover")
Maintained by
Juan A. Ferrer-Bonsoms
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2021-04-07
Latest Update: 2023-04-14
Description:
An optimized method for identifying mutually exclusive genomic events. Its main contribution is a statistical analysis based on the Poisson-Binomial distribution that takes into account that some samples are more mutated than others. See [Canisius, Sander, John WM Martens, and Lodewyk FA Wessels. (2016) "A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains most co-occurrence." Genome biology 17.1 : 1-17. ]. The mutations matrices are sparse matrices. The method developed takes advantage of the advantages of this type of matrix to save time and computing resources.
How to cite:
Juan A. Ferrer-Bonsoms (2021). Rediscover: Identify Mutually Exclusive Mutations. R package version 0.3.2, https://cran.r-project.org/web/packages/Rediscover. Accessed 06 Nov. 2024.
Previous versions and publish date:
0.1.0 (2021-04-07 11:00), 0.2.0 (2021-07-08 18:00), 0.3.0 (2021-10-06 11:20), 0.3.1 (2023-02-12 23:40)
Other packages that cited Rediscover R package
View Rediscover citation profile
Other R packages that Rediscover depends, imports, suggests or enhances
Complete documentation for Rediscover
Functions, R codes and Examples using the Rediscover R package
Some associated functions: AMP_COAD . A_Matrix . A_example . B_Matrix . B_example . InternalFunctions . PM_AMP_COAD . PM_COAD . PMatrix-class . TCGA_COAD . discoversomaticInteractions . getMutex . getMutexAB . getMutexGroup . getPM . 
Some associated R codes: AuxFunctions.R . PMatrixClass.R . discoversomaticInteractions.R . getMutex.R . getMutexAB.R . getMutexGroup.R . getPM.R .  Full Rediscover package functions and examples
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