DOI: 10.18129/B9.bioc.HiLDA    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see HiLDA.

Conducting statistical inference on comparing the mutational exposures of mutational signatures by using hierarchical latent Dirichlet allocation

Bioconductor version: 3.13

A package built under the Bayesian framework of applying hierarchical latent Dirichlet allocation to statistically test whether the mutational exposures of mutational signatures (Shiraishi-model signatures) are different between two groups.

Author: Zhi Yang [aut, cre], Yuichi Shiraishi [ctb]

Maintainer: Zhi Yang <zyang895 at gmail.com>

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biocViews Bayesian, Sequencing, Software, SomaticMutation, StatisticalMethod
Version 1.6.0
In Bioconductor since BioC 3.10 (R-3.6) (2 years)
License GPL-3
Depends R (>= 3.6), ggplot2
Imports R2jags, abind, cowplot, grid, forcats, stringr, GenomicRanges, S4Vectors, XVector, Biostrings, GenomicFeatures, BSgenome.Hsapiens.UCSC.hg19, BiocGenerics, tidyr, grDevices, stats, TxDb.Hsapiens.UCSC.hg19.knownGene, utils, methods, Rcpp
LinkingTo Rcpp
Suggests knitr, rmarkdown, testthat, BiocStyle
SystemRequirements JAGS 4.2.0
URL https://github.com/USCbiostats/HiLDA https://doi.org/10.1101/577452
BugReports https://github.com/USCbiostats/HiLDA/issues
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