recipe r-sigminer

Genomic alterations including single nucleotide substitution, copy number alteration, etc. are the major force for cancer initialization and development. Due to the specificity of molecular lesions caused by genomic alterations, we can generate characteristic alteration spectra, called 'signature' (Wang, Shixiang, et al. (2020) <DOI:10.1101/2020.04.27.20082404> & Alexandrov, Ludmil B., et al. (2020) <DOI:10.1038/s41586-020-1943-3> & Macintyre, Geoff, et al. (2018) <DOI:10.1038/s41588-018-0179-8>). This package helps users to extract, analyze and visualize signatures from genomic alteration records, thus providing new insight into cancer study.

Homepage:

https://github.com/ShixiangWang/sigminer

License:

MIT / MIT

Recipe:

/r-sigminer/meta.yaml

package r-sigminer

Versions:

2.1.9-1,  2.1.9-0,  2.1.8-1,  2.1.8-0,  2.1.7-1,  2.1.7-0,  2.1.6-1,  2.1.6-0,  2.1.5-1, 

2.1.9-1,  2.1.9-0,  2.1.8-1,  2.1.8-0,  2.1.7-1,  2.1.7-0,  2.1.6-1,  2.1.6-0,  2.1.5-1,  2.1.5-0,  2.1.4-0,  2.1.3-1,  2.1.3-0,  2.1.2-1,  2.1.2-0,  2.1.1-0,  2.1.0-0,  2.0.5-0,  2.0.4-0,  2.0.3-0,  2.0.2-0,  2.0.1-1,  2.0.1-0,  2.0.0-1,  2.0.0-0,  1.2.5-1,  1.2.5-0,  1.2.4-0,  1.2.1-0

Depends:

• bioconductor-maftools

• libgcc-ng >=12

• libstdcxx-ng >=12

• r-base >=4.2,<4.3.0a0

• r-cli >=2.0.0

• r-cowplot

• r-data.table

• r-dplyr

• r-furrr >=0.2.0

• r-future

• r-ggplot2 >=3.3.0

• r-ggpubr

• r-magrittr

• r-nmf

• r-purrr

• r-rcpp

• r-rlang >=0.1.2

• r-tidyr

Required By:

Installation

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

conda install r-sigminer

and update with:

conda update r-sigminer

or use the docker container:

docker pull quay.io/biocontainers/r-sigminer:<tag>

(see r-sigminer/tags for valid values for <tag>)

Download stats

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