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DESCRIPTION
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DESCRIPTION
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Package: nipalsMCIA
Title: Multiple Co-Inertia Analysis via the NIPALS Method
Version: 1.1.2
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:
BiocFileCache,
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: 7.3.1
Config/testthat/edition: 3