recipe bioconductor-omicspca

An R package for quantitative integration and analysis of multiple omics assays from heterogeneous samples

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/OMICsPCA.html

License:

GPL-3

Recipe:

/bioconductor-omicspca/meta.yaml

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.

package bioconductor-omicspca

Versions:

1.16.0-0,  1.12.0-0,  1.10.0-0,  1.8.0-1,  1.8.0-0,  1.5.0-0,  1.2.0-1

Depends:

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-helloranges >=1.24.0,<1.25.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-multiassayexperiment >=1.24.0,<1.25.0

• bioconductor-omicspcadata >=1.16.0,<1.17.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• r-base >=4.2,<4.3.0a0

• r-cluster

• r-clvalid

• r-corrplot

• r-cowplot

• r-data.table

• r-factoextra

• r-factominer

• r-fpc

• r-ggplot2

• r-kableextra

• r-magick

• r-mass

• r-nbclust

• r-pdftools

• r-performanceanalytics

• r-reshape2

• r-rgl

• r-rmarkdown

• r-tidyr

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-omicspca

and update with:

conda update bioconductor-omicspca

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-omicspca:<tag>

(see bioconductor-omicspca/tags for valid values for <tag>)

Download stats

Link to this page

Render an badge with the following MarkDown:

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