Package: MAST
Type: Package
Title: Model-based Analysis of Single Cell Transcriptomics
Version: 1.39.0
Date: 2025-10-20
Authors@R: c(person("Andrew", "McDavid", email = "andrew.n.mcdavid@gmail.com", role = c("aut", "cre")),
            person("Greg", "Finak", email="gfinak@fredhutch.org", role='aut'),
            person("Masanao", "Yajima", email="myajima@fredhutch.org", role='aut'))
VignetteBuilder: knitr
Imports: Biobase, BiocGenerics, S4Vectors, data.table, ggplot2, plyr,
        stringr, abind, methods, parallel, reshape2, stats, stats4,
        graphics, utils, SummarizedExperiment(>= 1.5.3), progress,
        Matrix
Depends: SingleCellExperiment (>= 1.2.0), R(>= 3.5)
Suggests: knitr, rmarkdown, testthat, lme4(>= 1.0), blme, roxygen2(>
        6.0.0), numDeriv, car, gdata, lattice, GGally, GSEABase, NMF,
        TxDb.Hsapiens.UCSC.hg19.knownGene, rsvd, limma, RColorBrewer,
        BiocStyle, scater, DelayedArray, HDF5Array, zinbwave, dplyr
Description: Methods and models for handling zero-inflated single cell
        assay data.
License: GPL(>= 2)
Collate: 'AllGenerics.R' 'AllClasses.R' 'CovFromBoots.R'
        'Fluidigm-methods.R' 'GSEA-by-boot.R' 'Hypothesis.R'
        'LmWrapper.R' 'MAST-package.R' 'MultidimensionalScaling.R'
        'RNASeqAssay-methods.R' 'Readers.R' 'SingleCellAssay-methods.R'
        'UtilityFunctions.R' 'ZlmFit-bootstrap.R' 'ZlmFit-logFC.R'
        'ZlmFit.R' 'bayesglm.R' 'convertMASTClassic.R'
        'ebayes-helpers.R' 'filterEval.R' 'helper-methods.R'
        'lmWrapper-bayesglm.R' 'lmWrapper-glm.R' 'lmWrapper-glmer.R'
        'lmWrapper-ridge.R' 'lrtest.R' 'predict.R' 'stat_ell.R'
        'thresholdSCRNA.R' 'zeroinf.R' 'zlmHooks.R'
RoxygenNote: 7.2.3
LazyData: true
biocViews: GeneExpression, DifferentialExpression, GeneSetEnrichment,
        RNASeq, Transcriptomics, SingleCell
BugReports: https://github.com/RGLab/MAST/issues
URL: https://github.com/RGLab/MAST/
Encoding: UTF-8
Config/pak/sysreqs: libicu-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:44:25 UTC
RemoteUrl: https://github.com/bioc/MAST
RemoteRef: HEAD
RemoteSha: 33e2f7332b70fd368f2ce9f426f3c717217e361e
NeedsCompilation: no
Packaged: 2026-07-04 16:20:13 UTC; root
Author: Andrew McDavid [aut, cre],
  Greg Finak [aut],
  Masanao Yajima [aut]
Maintainer: Andrew McDavid <andrew.n.mcdavid@gmail.com>