mixKernel: Omics Data Integration Using Kernel Methods

Kernel-based methods are powerful methods for integrating heterogeneous types of data. mixKernel aims at providing methods to combine kernel for unsupervised exploratory analysis. Different solutions are provided to compute a meta-kernel, in a consensus way or in a way that best preserves the original topology of the data. mixKernel also integrates kernel PCA to visualize similarities between samples in a non linear space and from the multiple source point of view <doi:10.1093/bioinformatics/btx682>. A method to select (as well as funtions to display) important variables is also provided <doi:10.1093/nargab/lqac014>.

Version: 0.9-1
Depends: R (≥ 3.5.0), mixOmics, ggplot2, reticulate (≥ 1.14)
Imports: vegan, phyloseq, corrplot, psych, quadprog, LDRTools, Matrix, methods, markdown
Suggests: rmarkdown, knitr
Published: 2024-01-27
DOI: 10.32614/CRAN.package.mixKernel
Author: Nathalie Vialaneix [aut, cre], Celine Brouard [aut], Remi Flamary [aut], Julien Henry [aut], Jerome Mariette [aut]
Maintainer: Nathalie Vialaneix <nathalie.vialaneix at inrae.fr>
BugReports: https://forgemia.inra.fr/genotoul-bioinfo/mixKernel/-/issues
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
URL: http://mixkernel.clementine.wf
NeedsCompilation: no
Citation: mixKernel citation info
Materials: NEWS
CRAN checks: mixKernel results


Reference manual: mixKernel.pdf
Vignettes: Installation instruction
Integrative exploratory analysis with mixKernel


Package source: mixKernel_0.9-1.tar.gz
Windows binaries: r-devel: mixKernel_0.9-1.zip, r-release: mixKernel_0.9-1.zip, r-oldrel: mixKernel_0.9-1.zip
macOS binaries: r-release (arm64): mixKernel_0.9-1.tgz, r-oldrel (arm64): mixKernel_0.9-1.tgz, r-release (x86_64): mixKernel_0.9-1.tgz, r-oldrel (x86_64): mixKernel_0.9-1.tgz
Old sources: mixKernel archive


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