Package: DAssemble
Type: Package
Title: Ensemble Models for Differential Analysis
Version: 0.99.3
Authors@R: 
    c(
        person("Himel", "Mallick", email = "him4004@med.cornell.edu", role = "aut"),
        person("Ziyu", "Liu", email = "lclcencen@gmail.com", role = "aut"),
        person("Nalin", "Arora", email = "naa4050@med.cornell.edu", role = c("aut", "cre"),
               comment = c(ORCID = "0009-0009-1340-688X")))
Description: The DAssemble package implements an ensemble framework for
        differential-abundance and differential-expression analysis
        across bulk RNA-seq, single-cell RNA-seq, and microbiome
        studies. It wraps a collection of popular DA/DE methods as core
        methods and combines them via Cauchy Combination Tests (CCT),
        optionally augmented by simple enhancers such as Wilcoxon,
        Kolmogorov–Smirnov, and presence–absence logistic regression.
License: MIT + file LICENSE
Encoding: UTF-8
biocViews: Software, StatisticalMethod, DifferentialExpression, RNASeq,
        SingleCell, Microbiome, Normalization, Regression
Depends: R (>= 4.5.0)
Imports: stats, utils, dplyr, MultiAssayExperiment,
        SummarizedExperiment
Suggests: DESeq2, edgeR, limma, dearseq, metagenomeSeq, MAST, cplm,
        dfadjust, glmmTMB, logging, MASS, pbapply, preprocessCore,
        Maaslin2, maaslin3, LOCOM2, MicrobiomeStat, ANCOMBC, ALDEx2,
        parallel, airway, scran, SingleCellExperiment, knitr,
        rmarkdown, BiocStyle, phyloseq, Seurat, S4Vectors, testthat (>=
        3.0.0), TreeSummarizedExperiment, KernSmooth, foreign, nnet,
        rpart, spatial, boot, class
Roxygen: list(markdown = TRUE)
VignetteBuilder: knitr
URL: https://github.com/himelmallick/DAssemble
BugReports: https://github.com/himelmallick/DAssemble/issues
Config/testthat/edition: 3
Config/roxygen2/version: 8.0.0
Config/pak/sysreqs: libicu-dev zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-07-15 12:53:26 UTC
RemoteUrl: https://github.com/bioc/DAssemble
RemoteRef: HEAD
RemoteSha: 806cb538cff3d03e930d9caf003042339cd30cf0
NeedsCompilation: no
Packaged: 2026-07-19 16:39:31 UTC; root
Author: Himel Mallick [aut],
  Ziyu Liu [aut],
  Nalin Arora [aut, cre] (ORCID: <https://orcid.org/0009-0009-1340-688X>)
Maintainer: Nalin Arora <naa4050@med.cornell.edu>