recipe bioconductor-pcaexplorer

Interactive Visualization of RNA-seq Data Using a Principal Components Approach

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-pcaexplorer/meta.yaml

Links:

biotools: pcaexplorer, doi: 10.18547/gcb.2017.vol3.iss1.e39

This package provides functionality for interactive visualization of RNA-seq datasets based on Principal Components Analysis. The methods provided allow for quick information extraction and effective data exploration. A Shiny application encapsulates the whole analysis.

package bioconductor-pcaexplorer

Versions:

2.24.0-0,  2.20.0-0,  2.18.0-0,  2.16.0-1,  2.16.0-0,  2.14.0-0,  2.12.0-0,  2.10.0-1,  2.8.0-0, 

2.24.0-0,  2.20.0-0,  2.18.0-0,  2.16.0-1,  2.16.0-0,  2.14.0-0,  2.12.0-0,  2.10.0-1,  2.8.0-0,  2.6.0-0,  2.4.0-0,  2.2.1-0,  2.0.0-0

Depends:

• bioconductor-annotationdbi >=1.60.0,<1.61.0

• bioconductor-biomart >=2.54.0,<2.55.0

• bioconductor-deseq2 >=1.38.0,<1.39.0

• bioconductor-genefilter >=1.80.0,<1.81.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-go.db >=3.16.0,<3.17.0

• bioconductor-gostats >=2.64.0,<2.65.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• bioconductor-topgo >=2.50.0,<2.51.0

• r-base >=4.2,<4.3.0a0

• r-base64enc

• r-dt

• r-ggplot2 >=2.0.0

• r-ggrepel

• r-heatmaply

• r-knitr

• r-nmf

• r-pheatmap

• r-plotly

• r-plyr

• r-rmarkdown

• r-scales

• r-shiny >=0.12.0

• r-shinyace

• r-shinybs

• r-shinydashboard

• r-threejs

• r-tidyr

Required By:

• bioconductor-ideal

Installation

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

conda install bioconductor-pcaexplorer

and update with:

conda update bioconductor-pcaexplorer

or use the docker container:

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

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

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Link to this page

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[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-pcaexplorer/README.html)