recipe bioconductor-cindex

Chromosome Instability Index

Homepage:

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

License:

GPL (>= 2)

Recipe:

/bioconductor-cindex/meta.yaml

Links:

biotools: cindex, doi: 10.1038/nmeth.3252

The CINdex package addresses important area of high-throughput genomic analysis. It allows the automated processing and analysis of the experimental DNA copy number data generated by Affymetrix SNP 6.0 arrays or similar high throughput technologies. It calculates the chromosome instability (CIN) index that allows to quantitatively characterize genome-wide DNA copy number alterations as a measure of chromosomal instability. This package calculates not only overall genomic instability, but also instability in terms of copy number gains and losses separately at the chromosome and cytoband level.

package bioconductor-cindex

Versions:

1.26.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.10.0-1, 

1.26.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0,  1.14.0-0,  1.12.0-1,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-0

Depends:

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-bitops

• r-dplyr

• r-gplots

• r-gridextra

• r-png

• r-som

• r-stringr

Required By:

Installation

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

conda install bioconductor-cindex

and update with:

conda update bioconductor-cindex

or use the docker container:

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

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

Download stats

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