Package: protGear
Type: Package
Title: Protein Micro Array Data Management and Interactive Visualization
Version: 1.15.0
Authors@R: c(person("Kennedy", "Mwai", role = c("cre", "aut"), email = "keniajin@gmail.com"),
             person(c("James", "Mburu"), role = "aut" , email = "mburuwanja@gmail.com") ,
             person(c("Jacqueline", "Waeni"), role = "ctb" , email = "jacqwaeni@gmail.com"))
Description: A generic three-step pre-processing package for protein microarray data. This package contains different data pre-processing procedures to allow comparison of their performance.These steps are background correction, the coefficient of variation (CV) based filtering,  batch correction and normalization.
License: GPL-3
URL: https://github.com/Keniajin/protGear
BugReports: https://github.com/Keniajin/protGear/issues
Depends:
    R (>= 4.2), dplyr (>= 0.8.0) , limma (>= 3.40.2) ,vsn (>= 3.54.0)
Imports:
     magrittr (>= 1.5) , stats (>= 3.6) , ggplot2 (>= 3.3.0)  , tidyr (>= 1.1.3) , data.table (>= 1.14.0),
    ggpubr (>= 0.4.0), gtools (>= 3.8.2) , tibble (>= 3.1.0) ,  rmarkdown (>= 2.9) , knitr (>= 1.33),
    utils (>= 3.6), genefilter (>= 1.74.0), readr (>= 2.0.1) , Biobase (>= 2.52.0), 
    plyr (>= 1.8.6) , Kendall (>= 2.2)  , shiny (>= 1.0.0) ,  purrr (>= 0.3.4),  plotly (>= 4.9.0) , MASS (>= 7.3) , 
    htmltools (>= 0.4.0) , flexdashboard (>= 0.5.2) , shinydashboard (>= 0.7.1) , 
    GGally (>= 2.1.2) , pheatmap (>= 1.0.12) ,  grid(>= 4.1.1),
     styler (>= 1.6.1) , factoextra (>= 1.0.7) ,FactoMineR (>= 2.4) , rlang (>= 0.4.11),
     remotes (>= 2.4.0) 
Suggests:
    gridExtra (>= 2.3),   png (>= 0.1-7) , magick (>= 2.7.3) , ggplotify (>= 0.1.0) , scales (>= 1.1.1) ,
    shinythemes (>= 1.2.0) , shinyjs (>= 2.0.0) , shinyWidgets (>= 0.6.2) ,
     shinycssloaders (>= 1.0.0) , shinyalert (>= 3.0.0) , shinyFiles (>= 0.9.1) , shinyFeedback (>= 0.3.0)
biocViews: Microarray, OneChannel, Preprocessing , BiomedicalInformatics , Proteomics , BatchEffect, Normalization , Bayesian, Clustering, Regression,SystemsBiology, ImmunoOncology
Encoding: UTF-8
LazyData: false
RoxygenNote: 7.2.3
VignetteBuilder: knitr
git_url: https://git.bioconductor.org/packages/protGear
git_branch: devel
git_last_commit: 1c28da5
git_last_commit_date: 2025-10-29
Repository: Bioconductor 3.23
