Package: GeneSelectR
Title: 'GeneSelectR' - Comprehensive Feature Selection Workflow for
        Bulk RNAseq Datasets
Version: 1.0.1
Authors@R: 
    person("Damir", "Zhakparov", , "dzhakparov@gmail.com", role = c("aut", "cre"),
           comment = c(ORCID = "0000-0001-7175-0843"))
Description: The workflow is a versatile R package designed for comprehensive feature selection in bulk RNAseq datasets. Its key innovation lies in the seamless integration of the 'Python' 'scikit-learn' (<https://scikit-learn.org/stable/index.html>) machine learning framework with R-based bioinformatics tools. 'GeneSelectR' performs robust Machine Learning-driven (ML) feature selection while leveraging 'Gene Ontology' (GO) enrichment analysis as described by Thomas PD et al. (2022) <doi:10.1002/pro.4218>, using 'clusterProfiler' (Wu et al., 2021) <doi:10.1016/j.xinn.2021.100141> and semantic similarity analysis powered by 'simplifyEnrichment' (Gu, Huebschmann, 2021) <doi:10.1016/j.gpb.2022.04.008>. This combination of methodologies optimizes computational and biological insights for analyzing complex RNAseq datasets.
License: MIT + file LICENSE
URL: https://github.com/dzhakparov/GeneSelectR
BugReports: https://github.com/dzhakparov/GeneSelectR/issues
Imports: cowplot (>= 1.1.1), dplyr (>= 1.1.0), ggplot2 (>= 3.4.2), glue
        (>= 1.6.2), magrittr (>= 2.0.3), methods (>= 4.2.2),
        RColorBrewer (>= 1.1.3), reshape2 (>= 1.4.4), reticulate (>=
        1.28), rlang (>= 1.1.1), testthat (>= 3.0.0), tibble (>=
        3.2.1), tidyr (>= 1.3.0), tmod (>= 0.50.13),
biocViews:
Suggests: clusterProfiler (>= 4.6.2), GO.db (>= 3.17.0), knitr,
        rmarkdown, BiocManager (>= 1.30.21), UpSetR (>= 1.4.0),
        AnnotationHub (>= 3.8.0), ensembldb (>= 2.24.0), org.Hs.eg.db
        (>= 3.17.0)
Enhances: simplifyEnrichment (>= 1.8.0)
Config/testthat/edition: 3
Encoding: UTF-8
RoxygenNote: 7.2.3
VignetteBuilder: knitr
Depends: R (>= 3.5.0)
NeedsCompilation: no
Packaged: 2024-02-02 16:20:22 UTC; damir
Author: Damir Zhakparov [aut, cre] (<https://orcid.org/0000-0001-7175-0843>)
Maintainer: Damir Zhakparov <dzhakparov@gmail.com>
Repository: CRAN
Date/Publication: 2024-02-03 14:00:05 UTC
Built: R 4.4.3; ; 2025-10-21 14:44:42 UTC; windows
