Package: smartid
Title: Scoring and Marker Selection Method Based on Modified TF-IDF
Version: 1.5.0
Authors@R: 
    person("Jinjin", "Chen", email = "chen.j@wehi.edu.au", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0001-7923-5723"))
Description: This package enables automated selection of group specific
    signature, especially for rare population. The package is developed for
    generating specifc lists of signature genes based on Term Frequency-Inverse
    Document Frequency (TF-IDF) modified methods. It can also be used as a new
    gene-set scoring method or data transformation method. Multiple visualization
    functions are implemented in this package.
biocViews: Software, GeneExpression, Transcriptomics
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.3.2
Collate: 'AllClasses.R' 'tf_idf_iae_wrappers.R' 'score.R'
        'AllGenerics.R' 'gs_score-methods.R' 'plot.R' 'scale_mgm.R'
        'smartid-package.R' 'score-methods.R' 'select_markers.R'
        'top_markers.R' 'top_markers-methods.R'
Depends: R (>= 4.4)
Imports: dplyr, ggplot2, graphics, Matrix, mclust, methods, mixtools,
        sparseMatrixStats, stats, SummarizedExperiment, tidyr, utils
Suggests: BiocStyle, dbscan, ggpubr, knitr, rmarkdown, scater,
        splatter, testthat (>= 3.0.0), tidytext, UpSetR
URL: https://davislaboratory.github.io/smartid
BugReports: https://github.com/DavisLaboratory/smartid/issues
VignetteBuilder: knitr
Language: en-US
Config/testthat/edition: 3
LazyData: false
git_url: https://git.bioconductor.org/packages/smartid
git_branch: devel
git_last_commit: efa54c9
git_last_commit_date: 2025-04-15
Repository: Bioconductor 3.22
Date/Publication: 2025-06-04
NeedsCompilation: no
Packaged: 2025-06-05 02:13:30 UTC; biocbuild
Author: Jinjin Chen [aut, cre] (ORCID: <https://orcid.org/0000-0001-7923-5723>)
Maintainer: Jinjin Chen <chen.j@wehi.edu.au>
Built: R 4.5.0; ; 2025-06-05 14:04:31 UTC; windows
