Package: OMICsPCA
Type: Package
Title: An R package for quantitative integration and analysis of
        multiple omics assays from heterogeneous samples
Version: 1.4.0
Date: 21/08/2018
Author: Subhadeep Das [aut, cre],
        Dr. Sucheta Tripathy [ctb]
Maintainer: Subhadeep Das <subhadeep1024@gmail.com>
Depends: R (>= 3.5.0), OMICsPCAdata
Suggests: knitr, RUnit, BiocGenerics
Description: OMICsPCA is an analysis pipeline designed to integrate multi OMICs experiments done on various subjects (e.g. Cell lines, individuals), treatments (e.g. disease/control) or time points and to analyse such integrated data from various various angles and perspectives. In it's core OMICsPCA uses Principal Component Analysis (PCA) to integrate multiomics experiments from various sources and thus has ability to over data insufficiency issues by using the ingegrated data as representatives. OMICsPCA can be used in various application including analysis of overall distribution of OMICs assays across various samples /individuals /time points; grouping assays by user-defined conditions; identification of source of variation, similarity/dissimilarity between assays, variables or individuals.
License: GPL-3
Encoding: UTF-8
biocViews: ImmunoOncology, MultipleComparison, PrincipalComponent,
        DataRepresentation, Workflow, Visualization,
        DimensionReduction, Clustering, BiologicalQuestion,
        EpigeneticsWorkflow, Transcription, GeneticVariability, GUI,
        BiomedicalInformatics, Epigenetics, FunctionalGenomics,
        SingleCell
Imports: HelloRanges, fpc, stats, MultiAssayExperiment, pdftools,
        methods, grDevices, utils,clValid, NbClust, cowplot, rmarkdown,
        kableExtra, rtracklayer, IRanges, GenomeInfoDb, reshape2,
        ggplot2, factoextra, rgl, corrplot, MASS, graphics, FactoMineR,
        PerformanceAnalytics, tidyr, data.table, cluster, magick
VignetteBuilder: knitr
LazyData: TRUE
RoxygenNote: 6.0.1
git_url: https://git.bioconductor.org/packages/OMICsPCA
git_branch: RELEASE_3_10
git_last_commit: 9033c55
git_last_commit_date: 2019-10-29
Date/Publication: 2019-10-29
NeedsCompilation: no
Packaged: 2019-10-30 04:51:03 UTC; biocbuild
Built: R 3.6.1; ; 2019-10-30 13:49:38 UTC; windows
