DESCRIPTION

Package: SLCPTAC
Type: Package
Title: Multi-Omics Analysis Toolkit for CPTAC Cancer Database
Version: 1.2.0
Authors@R: person("Zaoqu", "Liu", 
           email = "liuzaoqu@163.com", 
           role = c("aut", "cre"),
           comment = c(ORCID = "0000-0002-0452-742X"))
Description: A comprehensive toolkit for mining and analyzing multi-omics cancer data 
    from CPTAC (Clinical Proteomic Tumor Analysis Consortium) and other databases. 
    Provides elegant, easy-to-use functions for correlation analysis (7 scenarios), 
    enrichment analysis (8 scenarios), and survival analysis (2 scenarios). Supports 
    RNAseq, Protein, Phosphorylation, Mutation, Clinical, Copy Number, and Methylation 
    data across 10 cancer types. Features automatic phosphorylation site detection, 
    multi-cancer comparison, and publication-ready visualizations. Implements 17 
    analysis scenarios covering all combinations of continuous and categorical variables.
License: GPL (>= 3)
Encoding: UTF-8
RoxygenNote: 7.3.3
Depends: R (>= 4.0.0)
Imports: qs (>= 0.25.0), dplyr (>= 1.0.0), ggplot2 (>= 3.3.0),
        survival (>= 3.2.0), patchwork (>= 1.1.0), limma, geneset,
        genekitr2, rlang (>= 1.0.0), igraph (>= 1.2.0), ggraph
        (>= 2.0.0), fgsea (>= 1.18.0), jsonlite (>= 1.7.0),
        ComplexHeatmap, Hmisc, tidyr,
        ggnewscale, ggrepel, scales, circlize, methods, grid
Suggests: knitr, rmarkdown, testthat (>= 3.0.0), progress
LazyData: true
VignetteBuilder: knitr
URL: https://github.com/SolvingLab/SLCPTAC
BugReports: https://github.com/SolvingLab/SLCPTAC/issues
NeedsCompilation: no
Packaged: 2026-03-13 13:48:12 UTC; liuzaoqu
Author: Zaoqu Liu [aut, cre] (<https://orcid.org/0000-0002-0452-742X>)
Maintainer: Zaoqu Liu <liuzaoqu@163.com>