missRows

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7

Handling Missing Individuals in Multi-Omics Data Integration

Bioconductor version: Development (3.24)

The missRows package implements the MI-MFA method to deal with missing individuals ('biological units') in multi-omics data integration. The MI-MFA method generates multiple imputed datasets from a Multiple Factor Analysis model, then the yield results are combined in a single consensus solution. The package provides functions for estimating coordinates of individuals and variables, imputing missing individuals, and various diagnostic plots to inspect the pattern of missingness and visualize the uncertainty due to missing values.

Author: Ignacio Gonzalez and Valentin Voillet

Maintainer: Gonzalez Ignacio <ignacio.gonzalez at bbox.fr>

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

Ignacio Gonzalez and Valentin Voillet. missRows: Handling Missing Individuals in Multi-Omics Data Integration. doi:10.18129/B9.bioc.missRows, R package version 1.33.0, https://bioconductor.org/packages/missRows.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("missRows")

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

Documentation

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

browseVignettes("missRows")

missRows	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DimensionReduction, MathematicalBiology, PrincipalComponent, Software, StatisticalMethod, Visualization
Version	1.33.0
In Bioconductor since	BioC 3.7 (R-3.5) (8.5 years)
License	Artistic-2.0
Depends	R (>= 3.5), methods, ggplot2, grDevices, MultiAssayExperiment
Imports	plyr, stats, gtools, S4Vectors
System Requirements
URL

Suggests	BiocStyle, knitr, testthat
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Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	missRows_1.33.0.tar.gz
Windows Binary (x86_64)	missRows_1.33.0.zip
macOS Binary (big-sur-x86_64)	missRows_1.33.0.tgz
macOS Binary (sonoma-arm64)	missRows_1.33.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/missRows
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/missRows
Package Short Url	https://bioconductor.org/packages/missRows/
Package Downloads Report	Download Stats