Package: TOAST
Type: Package
Title: Tools for the analysis of heterogeneous tissues
Version: 1.27.0
Description: This package is devoted to analyzing high-throughput data
        (e.g. gene expression microarray, DNA methylation microarray,
        RNA-seq) from complex tissues. Current functionalities include
        1. detect cell-type specific or cross-cell type differential
        signals 2. tree-based differential analysis 3. improve variable
        selection in reference-free deconvolution 4. partial
        reference-free deconvolution with prior knowledge.
Author: Ziyi Li and Weiwei Zhang and Luxiao Chen and Hao Wu
Maintainer: Ziyi Li <zli16@mdanderson.org>
License: GPL-2
Encoding: UTF-8
LazyData: false
Depends: R (>= 3.6), EpiDISH, limma, nnls, quadprog
biocViews: DNAMethylation, GeneExpression, DifferentialExpression,
        DifferentialMethylation, Microarray, GeneTarget, Epigenetics,
        MethylationArray
BugReports: https://github.com/ziyili20/TOAST/issues
Imports: stats, methods, SummarizedExperiment, corpcor, doParallel,
        parallel, ggplot2, tidyr, GGally
Suggests: BiocStyle, knitr, rmarkdown, gplots, matrixStats, Matrix
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2026-07-04 04:32:19 UTC; root
Config/pak/sysreqs: libicu-dev libpng-dev libxml2-dev libssl-dev
        zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:50:25 UTC
RemoteUrl: https://github.com/bioc/TOAST
RemoteRef: HEAD
RemoteSha: a6f220997458acba9d0d89efc49a956263e5170e