recipe bioconductor-titancna

Subclonal copy number and LOH prediction from whole genome sequencing of tumours

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-titancna/meta.yaml

Links:

biotools: titancna

Hidden Markov model to segment and predict regions of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH), and estimate cellular prevalence of clonal clusters in tumour whole genome sequencing data.

package bioconductor-titancna

Versions:

1.36.0-0,  1.32.0-2,  1.32.0-1,  1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0, 

1.36.0-0,  1.32.0-2,  1.32.0-1,  1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.20.1-0,  1.20.0-0,  1.19.1-4,  1.19.1-3,  1.19.1-2,  1.19.1-1,  1.19.1-0,  1.18.0-0,  1.17.2-0,  1.16.0-1,  1.16.0-0,  1.15.0-0,  1.14.0-0

Depends:

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• 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-variantannotation >=1.44.0,<1.45.0

• libblas >=3.9.0,<4.0a0

• libgcc-ng >=12

• liblapack >=3.9.0,<4.0a0

• r-base >=4.2,<4.3.0a0

• r-data.table >=1.10.4

• r-dplyr >=0.5.0

• r-foreach >=1.4.3

Required By:

Installation

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

conda install bioconductor-titancna

and update with:

conda update bioconductor-titancna

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-titancna/README.html)