recipe bioconductor-cimice

CIMICE-R: (Markov) Chain Method to Inferr Cancer Evolution

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-cimice/meta.yaml

CIMICE is a tool in the field of tumor phylogenetics and its goal is to build a Markov Chain (called Cancer Progression Markov Chain, CPMC) in order to model tumor subtypes evolution. The input of CIMICE is a Mutational Matrix, so a boolean matrix representing altered genes in a collection of samples. These samples are assumed to be obtained with single-cell DNA analysis techniques and the tool is specifically written to use the peculiarities of this data for the CMPC construction.

package bioconductor-cimice

Versions:

1.6.0-0,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-maftools >=2.14.0,<2.15.0

• r-assertthat

• r-base >=4.2,<4.3.0a0

• r-dplyr

• r-expm

• r-ggcorrplot

• r-ggplot2

• r-ggraph

• r-glue

• r-igraph

• r-matrix

• r-networkd3

• r-purrr

• r-tidygraph

• r-tidyr

• r-visnetwork

Required By:

Installation

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

conda install bioconductor-cimice

and update with:

conda update bioconductor-cimice

or use the docker container:

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

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

Download stats

Link to this page

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