Package: TMSig
Type: Package
Title: Tools for Molecular Signatures
Version: 1.4.0
Date: 2024-10-17
Authors@R: 
    c(
      person(given = "Tyler", family = "Sagendorf", 
             email = "tyler.sagendorf@pnnl.gov",
             comment = c(ORCID = "0000-0003-1552-4870"),
             role = c("aut", "cre")),
      person(given = "Di", family = "Wu", role = "ctb"),
      person(given = "Gordon", family = "Smyth", role = "ctb")
    )
Description: The TMSig package contains tools to prepare, analyze, and
        visualize named lists of sets, with an emphasis on molecular
        signatures (such as gene or kinase sets). It includes fast,
        memory efficient functions to construct sparse incidence and
        similarity matrices and filter, cluster, invert, and decompose
        sets. Additionally, bubble heatmaps can be created to visualize
        the results of any differential or molecular signatures
        analysis.
License: GPL (>= 3)
URL: https://github.com/EMSL-Computing/TMSig
BugReports: https://github.com/EMSL-Computing/TMSig/issues
Encoding: UTF-8
RoxygenNote: 7.3.2
Roxygen: list(markdown = TRUE)
VignetteBuilder: knitr
biocViews: Clustering, GeneSetEnrichment, GraphAndNetwork, Pathways,
        Visualization
Depends: R (>= 4.4.0), limma
Imports: circlize, ComplexHeatmap, data.table, grDevices, grid,
        GSEABase, Matrix, methods, stats, utils
Suggests: BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0)
Config/testthat/edition: 3
Config/pak/sysreqs: libpng-dev libxml2-dev libssl-dev perl zlib1g-dev
Repository: https://bioc-release.r-universe.dev
Date/Publication: 2025-10-29 15:33:04 UTC
RemoteUrl: https://github.com/bioc/TMSig
RemoteRef: RELEASE_3_22
RemoteSha: c174939a1cffd199619b60dc17d8bbcc28427514
NeedsCompilation: no
Packaged: 2026-01-25 09:00:04 UTC; root
Author: Tyler Sagendorf [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-1552-4870>),
  Di Wu [ctb],
  Gordon Smyth [ctb]
Maintainer: Tyler Sagendorf <tyler.sagendorf@pnnl.gov>
Built: R 4.5.2; ; 2026-01-25 09:01:35 UTC; windows
