recipe bioconductor-octad

Open Cancer TherApeutic Discovery (OCTAD)

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-octad/meta.yaml

OCTAD provides a platform for virtually screening compounds targeting precise cancer patient groups. The essential idea is to identify drugs that reverse the gene expression signature of disease by tamping down over-expressed genes and stimulating weakly expressed ones. The package offers deep-learning based reference tissue selection, disease gene expression signature creation, pathway enrichment analysis, drug reversal potency scoring, cancer cell line selection, drug enrichment analysis and in silico hit validation. It currently covers ~20,000 patient tissue samples covering 50 cancer types, and expression profiles for ~12,000 distinct compounds.

package bioconductor-octad

Versions:

1.0.0-0

Depends:

• bioconductor-annotationhub >=3.6.0,<3.7.0

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-deseq2 >=1.38.0,<1.39.0

• bioconductor-edaseq >=2.32.0,<2.33.0

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-experimenthub >=2.6.0,<2.7.0

• bioconductor-gsva >=1.46.0,<1.47.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-octad.db >=1.0.0,<1.1.0

• bioconductor-rhdf5 >=2.42.0,<2.43.0

• bioconductor-ruvseq >=1.32.0,<1.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-dplyr

• r-foreach

• r-ggplot2

• r-htmlwidgets

• r-httr

• r-magrittr

• r-plotly

• r-reshape2

• r-rfast

Required By:

Installation

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

conda install bioconductor-octad

and update with:

conda update bioconductor-octad

or use the docker container:

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

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

Download stats

Link to this page

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