Package: kimod
Type: Package
Title: A k-tables approach to integrate multiple Omics-Data
Version: 1.12.0
Date: 2015-12-7
Author: Maria Laura Zingaretti, Johanna Altair Demey-Zambrano, Jose Luis Vicente-Villardon, Jhonny Rafael Demey
Maintainer: M L Zingaretti <m.lau.zingaretti@gmail.com>
Description: This package allows to work with mixed omics data (transcriptomics, proteomics, microarray-chips, rna-seq data), introducing the following
                 improvements: distance options (for numeric and/or categorical variables) for each of the tables, bootstrap resampling techniques on the
                 residuals matrices for all methods, that enable perform confidence ellipses for the projection of individuals, variables and biplot
                 methodology to project variables (gene expression) on the compromise. Since the main purpose of the package is to use these techniques to
                 omic data analysis, it includes an example data from four different microarray platforms (i.e.,Agilent, Affymetrix HGU 95, Affymetrix HGU
                 133 and Affymetrix HGU 133plus 2.0) on the NCI-60 cell lines.NCI60_4arrays is a list containing the NCI-60 microarray data with only few
                 hundreds of genes randomly selected in each platform to keep the size of the package small. The data are the same that the package omicade4
                 used to implement the co-inertia analysis. The references in packages follow the style of the APA-6th norm.
License: GPL (>=2)
LazyData: TRUE
biocViews: Microarray, Visualization, GeneExpression, ExperimentData,
        Proteomics
Depends: R(>= 3.3),methods
Imports: cluster, graphics, Biobase
Collate: 'ReadData.R' 'DiStatis-Class.R' 'Bootstrap-Class.R'
        'SelectVar-Class.R' 'GroupProj-Class.R' 'Auxiliares.R'
        'CalculateDist.R' 'ComputeDistances.R' 'cbinPad.R'
        'DiStatis-DiStatis.R' 'DiStatis-CompPlot.R' 'DiStatis-RVPlot.R'
        'DiStatis-PanelPlot.R' 'DiStatis-TrajPlot.R' 'DiStatis-print.R'
        'DiStatis-Bootstrap.R' 'Bootstrap-BootPlot.R'
        'Bootstrap-print.R' 'DiStatis-SelectVar.R' 'SelectVar-print.R'
        'SelectVar-Biplot.R' 'GroupProj.R' 'GroupProj-print.R'
RoxygenNote: 5.0.1
NeedsCompilation: no
git_url: https://git.bioconductor.org/packages/kimod
git_branch: RELEASE_3_9
git_last_commit: 1050937
git_last_commit_date: 2019-05-02
Date/Publication: 2019-05-02
Packaged: 2019-05-03 03:47:54 UTC; biocbuild
Built: R 3.6.0; ; 2019-05-03 13:45:22 UTC; windows
