omiprep/DESCRIPTION at main · MRCIEU/omiprep · GitHub

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Package: omiprep
Title: Omics data preparation and processing pipeline
Version: 1.0.0
Authors@R: c(person("Laura", "Corbin",        email = "laura.corbin@bristol.ac.uk",        role = c("aut")),
             person("David", "Hughes",        email = "hughes.evoanth@gmail.com",          role = c("aut", "cre")),
             person("Nicholas", "Sunderland", email = "nicholas.sunderland@bristol.ac.uk", role = c("aut")),
             person("Matthew", "Lee",         email = "matthew.lee@bristol.ac.uk",         role = c("aut")),
             person("Alec", "McKinlay",       email = "am17168@bristol.ac.uk",             role = c("aut")))
Description: |
  Reads in raw Metabolon, Nightingale Health, Olink, and SomaLogic xls sheets, or flat text files and aids in data preparation of all metabolomics & proteomics data sets. Formerly known as metaboprep.
Depends: R (>= 4.1.0)
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Imports:
    boot,
    car,
    cli,
    ggplot2,
    ggpubr,
    nFactors,
    pcaMethods,
    irlba,
    psych,
    pwr,
    readxl,
    rmarkdown,
    S7,
    yaml,
    OlinkAnalyze,
    SomaDataIO,
    reshape2,
    openxlsx,
    stringr,
    shiny,
    shinycssloaders,
    bslib,
    DT,
    plotly
Suggests:
    knitr,
    dendextend,
    kableExtra,
    remotes,
    testthat (>= 3.0.0),
    withr
Remotes:
    hredestig/pcaMethods
URL: https://mrcieu.github.io/omiprep/
Collate:
    'class_omiprep.R'
    'batch_normalise.R'
    'continous_power_plot.R'
    'cramer_v.R'
    'export.R'
    'feature_describe.R'
    'feature_skewness.R'
    'feature_summary.R'
    'generate_report.R'
    'imbalanced_power_plot.R'
    'missingness.R'
    'multivariate_anova.R'
    'outlier_detection.R'
    'pc_and_outliers.R'
    'quality_control.R'
    'read_metabolon.R'
    'read_nightingale.R'
    'read_olink.R'
    'read_somalogic.R'
    'run_metaboprep1.R'
    'sample_summary.R'
    'shiny_app.R'
    'summarise.R'
    'summary_omiprep.R'
    'total_sum_abundance.R'
    'tree_and_independent_features.R'
    'utils.R'
    'variable_by_factor.R'
    'zzz.R'
VignetteBuilder: knitr
Config/testthat/edition: 3
Config/roxygen2/version: 8.0.0.9000