HiLDA
This is the development version of HiLDA; for the stable release version, see HiLDA.
All Bioconductor versions of HiLDA
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10
Conducting statistical inference on comparing the mutational exposures of mutational signatures by using hierarchical latent Dirichlet allocation
Bioconductor version: 3.24 · Package version: 1.27.0
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.
Author: Zhi Yang [aut, cre], Yuichi Shiraishi [ctb]
Maintainer: Zhi Yang <zyang895 at gmail.com>
Citation
From within R, enter citation("HiLDA"):
Zhi Yang. HiLDA: Conducting statistical inference on comparing the mutational exposures of mutational signatures by using hierarchical latent Dirichlet allocation. doi:10.18129/B9.bioc.HiLDA, R package version 1.27.0, https://bioconductor.org/packages/HiLDA.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("HiLDA")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.27.0 |
| License | GPL-3 |
| URL | https://github.com/USCbiostats/HiLDA https://doi.org/10.1101/577452 |
| Bug Reports | https://github.com/USCbiostats/HiLDA/issues |
| System Requirements | JAGS 4.0.0 |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.10 (R-3.6) (6 years) |
| Downloads rank | 1058 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Bayesian, Sequencing, Software, SomaticMutation, StatisticalMethod |
| Package Short Url | https://bioconductor.org/packages/HiLDA/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("HiLDA")| HiLDA: a package for testing the burdens of mutational signatures | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | HiLDA_1.27.0.tar.gz |
| Windows binary (x86_64) | HiLDA_1.27.0.zip |
| macOS binary (arm64) | HiLDA_1.27.0.tgz |
| macOS binary (x86_64) | HiLDA_1.27.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/HiLDA |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/HiLDA |
| Package Downloads Report | Download Stats |
Dependencies
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
LinkingTo: Rcpp
Reverse dependencies
Imports Me (1): selectKSigs