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This is the development version of nipalsMCIA; for the stable release version, see nipalsMCIA.

Multiple Co-Inertia Analysis via the NIPALS Method

Bioconductor version: Development (3.20)

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.

Author: Maximilian Mattessich [cre] , Joaquin Reyna [aut] , Edel Aron [aut] , Anna Konstorum [aut]

Maintainer: Maximilian Mattessich <maximilian.mattessich at>

Citation (from within R, enter citation("nipalsMCIA")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Analysis of MCIA Decomposition HTML R Script
Predicting New MCIA scores HTML R Script
Single Cell Analysis HTML R Script
Reference Manual PDF


biocViews Classification, Clustering, MultipleComparison, Normalization, Preprocessing, SingleCell, Software
Version 1.3.0
In Bioconductor since BioC 3.18 (R-4.3) (0.5 years)
License GPL-3
Depends R (>= 4.3.0)
Imports ComplexHeatmap, dplyr, fgsea, ggplot2 (>= 3.0.0), graphics, grid, methods, MultiAssayExperiment, SummarizedExperiment, pracma, rlang, RSpectra, scales, stats
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Suggests BiocFileCache, BiocStyle, circlize, ggpubr, KernSmooth, knitr, piggyback, reshape2, rmarkdown, rpart, Seurat (>= 4.0.0), spatstat.explore, stringr, survival, tidyverse, testthat (>= 3.0.0)
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Follow Installation instructions to use this package in your R session.

Source Package nipalsMCIA_1.3.0.tar.gz
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macOS Binary (x86_64) nipalsMCIA_1.3.0.tgz
macOS Binary (arm64) nipalsMCIA_1.3.0.tgz
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