Package: nipalsMCIA
Title: Multiple Co-Inertia Analysis via the NIPALS Method
Version: 1.0.0
Authors@R: c(
    person("Maximilian", "Mattessich",
            email = "maximilian.mattessich@northwestern.edu",
            role = "cre", comment = c(ORCID = "0000-0002-1233-1240")),
    person("Joaquin", "Reyna", email = "joreyna@live.com",
            role = "aut", comment = c(ORCID = "0000-0002-8468-2840")),
    person("Edel", "Aron", email = "edel.aron@yale.edu",
            role = "aut", comment = c(ORCID = "0000-0002-8683-4772")),
    person("Anna", "Konstorum", email = "konstorum.anna@gmail.com",
            role = "aut", comment = c(ORCID = "0000-0003-4024-2058")))
Description: Computes Multiple Co-Inertia Analysis (MCIA), a
    dimensionality reduction (jDR) algorithm, for a multi-block dataset
    using a modification to the Nonlinear Iterative Partial Least Squares
    method (NIPALS) proposed in (Hanafi et. al, 2010). Allows multiple
    options for row- and table-level preprocessing, and speeds up
    computation of variance explained. Vignettes detail application to
    bulk- and single cell- multi-omics studies.
License: GPL-3
URL: https://github.com/Muunraker/nipalsMCIA
BugReports: https://github.com/Muunraker/nipalsMCIA/issues
Depends: R (>= 4.3.0)
Imports: ComplexHeatmap, dplyr, fgsea, ggplot2 (>= 3.0.0), graphics,
        grid, methods, MultiAssayExperiment, SummarizedExperiment,
        pracma, rlang, RSpectra, scales, stats
Suggests: BiocStyle, circlize, ggpubr, KernSmooth, knitr, piggyback,
        reshape2, rmarkdown, rpart, Seurat (>= 4.0.0),
        spatstat.explore, stringr, survival, tidyverse, testthat (>=
        3.0.0)
VignetteBuilder: knitr
biocViews: Software, Clustering, Classification, MultipleComparison,
        Normalization, Preprocessing, SingleCell
Encoding: UTF-8
RoxygenNote: 7.2.3
Config/testthat/edition: 3
git_url: https://git.bioconductor.org/packages/nipalsMCIA
git_branch: RELEASE_3_18
git_last_commit: 70dd4bf
git_last_commit_date: 2023-10-24
Date/Publication: 2023-10-24
NeedsCompilation: no
Packaged: 2023-10-24 22:12:55 UTC; biocbuild
Author: Maximilian Mattessich [cre] (<https://orcid.org/0000-0002-1233-1240>),
  Joaquin Reyna [aut] (<https://orcid.org/0000-0002-8468-2840>),
  Edel Aron [aut] (<https://orcid.org/0000-0002-8683-4772>),
  Anna Konstorum [aut] (<https://orcid.org/0000-0003-4024-2058>)
Maintainer: Maximilian Mattessich <maximilian.mattessich@northwestern.edu>
Built: R 4.3.2; ; 2023-12-06 11:07:20 UTC; unix
