recipe bioconductor-sbgnview

"SBGNview: Data Analysis, Integration and Visualization on SBGN Pathways"

Homepage

https://bioconductor.org/packages/3.14/bioc/html/SBGNview.html

License

AGPL-3

Recipe

/bioconductor-sbgnview/meta.yaml

SBGNview is a tool set for pathway based data visalization, integration and analysis. SBGNview is similar and complementary to the widely used Pathview, with the following key features: 1. Pathway definition by the widely adopted Systems Biology Graphical Notation (SBGN); 2. Supports multiple major pathway databases beyond KEGG (Reactome, MetaCyc, SMPDB, PANTHER, METACROP) and user defined pathways; 3. Covers 5,200 reference pathways and over 3,000 species by default; 4. Extensive graphics controls, including glyph and edge attributes, graph layout and sub-pathway highlight; 5. SBGN pathway data manipulation, processing, extraction and analysis.

package bioconductor-sbgnview

Versions

1.8.0-0,  1.6.0-0,  1.4.1-0,  1.4.0-0,  1.2.0-0,  1.0.0-1

Depends

• bioconductor-annotationdbi >=1.56.0,<1.57.0

• bioconductor-keggrest >=1.34.0,<1.35.0

• bioconductor-pathview >=1.34.0,<1.35.0

• bioconductor-sbgnview.data >=1.8.0,<1.9.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• r-base >=4.1,<4.2.0a0

• r-bookdown

• r-httr

• r-igraph

• r-knitr

• r-rdpack

• r-rmarkdown

• r-rsvg

• r-xml2

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-sbgnview

and update with:

conda update bioconductor-sbgnview

or use the docker container:

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

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

Download stats

Link to this page

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