recipe bioconductor-radiogx

Analysis of Large-Scale Radio-Genomic Data

Homepage

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

License

GPL-3

Recipe

/bioconductor-radiogx/meta.yaml

Computational tool box for radio-genomic analysis which integrates radio-response data, radio-biological modelling and comprehensive cell line annotations for hundreds of cancer cell lines. The 'RadioSet' class enables creation and manipulation of standardized datasets including information about cancer cells lines, radio-response assays and dose-response indicators. Included methods allow fitting and plotting dose-response data using established radio-biological models along with quality control to validate results. Additional functions related to fitting and plotting dose response curves, quantifying statistical correlation and calculating area under the curve (AUC) or survival fraction (SF) are included. For more details please see the included documentation, references, as well as: Manem, V. et al (2018) <doi:10.1101/449793>.

package bioconductor-radiogx

Versions

1.4.0-0,  1.2.0-0,  1.0.0-2,  1.0.0-1

Depends

• bioconductor-biobase >=2.54.0,<2.55.0

• bioconductor-biocparallel >=1.28.0,<1.29.0

• bioconductor-coregx >=1.6.0,<1.7.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• r-assertthat

• r-base >=4.1,<4.2.0a0

• r-catools

• r-downloader

• r-magicaxis

• r-matrixstats

• r-rcolorbrewer

• r-reshape2

• r-scales

Required By

Installation

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

conda install bioconductor-radiogx

and update with:

conda update bioconductor-radiogx

or use the docker container:

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

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

Download stats

Link to this page

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