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. <doi:10.1186/s13059-016-1114-x>]. 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.
Version: 0.3.2 Depends: R (≥ 4.0), Matrix, PoissonBinomial, ShiftConvolvePoibin, utils, matrixStats Imports: maftools, data.table, parallel, RColorBrewer, methods Suggests: knitr, rmarkdown, RUnit, BiocStyle, BiocGenerics, dplyr, kableExtra, magick, stats, qvalue Published: 2023-04-14 DOI: 10.32614/CRAN.package.Rediscover Author: Juan A. Ferrer-Bonsoms, Laura Jareno, and Angel Rubio Maintainer: Juan A. Ferrer-Bonsoms <jafhernandez at tecnun.es> License: Artistic-2.0 NeedsCompilation: no Citation: Rediscover citation info Materials: README NEWS In views: Omics CRAN checks: Rediscover results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=Rediscover to link to this page.
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