Package: HiLDA
Type: Package
Title: Conducting statistical inference on comparing the mutational
        exposures of mutational signatures by using hierarchical latent
        Dirichlet allocation
Depends: R(>= 4.1), 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
Suggests: knitr, rmarkdown, testthat, BiocStyle
Version: 1.25.0
Date: 2021-10-13
Authors@R: c(person("Zhi", "Yang", email = "zyang895@gmail.com", 
             role = c("aut", "cre")),
             person("Yuichi", "Shiraishi", email = "friend1ws@gmail.com", 
             role = "ctb"))
Description: A package built under the Bayesian framework of applying
        hierarchical latent Dirichlet allocation. It statistically
        tests whether the mutational exposures of mutational signatures
        (Shiraishi-model signatures) are different between two groups.
        The package also provides inference and visualization.
License: GPL-3
URL: https://github.com/USCbiostats/HiLDA,
        https://doi.org/10.1101/577452
BugReports: https://github.com/USCbiostats/HiLDA/issues
SystemRequirements: JAGS 4.0.0
biocViews: Software, SomaticMutation, Sequencing, StatisticalMethod,
        Bayesian
RoxygenNote: 7.1.2
LinkingTo: Rcpp
VignetteBuilder: knitr
Encoding: UTF-8
Config/pak/sysreqs: make jags libbz2-dev libicu-dev liblzma-dev
        libpng-dev libxml2-dev libssl-dev xz-utils zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2025-10-29 14:53:14 UTC
RemoteUrl: https://github.com/bioc/HiLDA
RemoteRef: HEAD
RemoteSha: 0c7e75aebdc1b672fbec24981e59972e790d055b
NeedsCompilation: yes
Packaged: 2026-01-04 16:50:58 UTC; root
Author: Zhi Yang [aut, cre],
  Yuichi Shiraishi [ctb]
Maintainer: Zhi Yang <zyang895@gmail.com>
Built: R 4.6.0; x86_64-apple-darwin20; 2026-01-04 16:58:26 UTC; unix
