recipe bioconductor-dnacopy

DNA copy number data analysis

Homepage:

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

License:

GPL (>= 2)

Recipe:

/bioconductor-dnacopy/meta.yaml

Links:

biotools: dnacopy, doi: 10.1038/nmeth.3252

Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number.

package bioconductor-dnacopy

Versions:

1.72.0-1,  1.72.0-0,  1.68.0-2,  1.68.0-1,  1.68.0-0,  1.66.0-0,  1.64.0-1,  1.64.0-0,  1.62.0-0, 

1.72.0-1,  1.72.0-0,  1.68.0-2,  1.68.0-1,  1.68.0-0,  1.66.0-0,  1.64.0-1,  1.64.0-0,  1.62.0-0,  1.60.0-0,  1.58.0-2,  1.58.0-1,  1.58.0-0,  1.56.0-0,  1.54.0-0,  1.52.0-0,  1.50.1-0,  1.48.0-1,  1.48.0-0,  1.46.0-0,  1.44.0-0

Depends:

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• libgfortran-ng

• libgfortran5 >=12.2.0

• liblapack >=3.9.0,<4.0a0

• r-base >=4.2,<4.3.0a0

Required By:

• bioconductor-cnanorm

• bioconductor-methcp

• bioconductor-rcgh

• r-pscbs

• bioconductor-cghcall

• cnvkit

• bioconductor-adacgh2

• bioconductor-maftools

• bioconductor-clonality

• bioconductor-snapcgh

• bioconductor-cnvrd2

• bioconductor-mdts

• bioconductor-cghmcr

• bioconductor-purecn

• bioconductor-qdnaseq

• bioconductor-cn.farms

• bioconductor-champ

• bioconductor-repitools

• bioconductor-contibait

• bioconductor-conumee

• bioconductor-minimumdistance

• bioconductor-aneufinder

• hopla

• bioconductor-crimage

• bioconductor-scope

• wisecondorx

• bioconductor-medips

• oncocnv

• bioconductor-copywriter

• bioconductor-gwastools

• r-crisprcleanr

Installation

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

conda install bioconductor-dnacopy

and update with:

conda update bioconductor-dnacopy

or use the docker container:

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

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

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