Identify Mutually Exclusive Mutations

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.


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install.packages("Rediscover")

0.3.0 by Juan A. Ferrer-Bonsoms Developer, 18 days ago


Browse source code at https://github.com/cran/Rediscover


Authors: Juan A. Ferrer-Bonsoms Developer [aut, cre] , Laura Jareno Developer [aut] , Angel Rubio User [aut, ctb]


Documentation:   PDF Manual  


Artistic-2.0 license


Imports maftools, data.table, parallel, RColorBrewer, methods

Depends on Matrix, speedglm, PoissonBinomial, ShiftConvolvePoibin, utils, matrixStats

Suggests knitr, rmarkdown, RUnit, BiocStyle, BiocGenerics, dplyr, kableExtra, TCGAbiolinks, magick, stats, qvalue


See at CRAN