recipe bioconductor-ternarynet

Ternary Network Estimation

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/ternarynet.html

License:

GPL (>= 2)

Recipe:

/bioconductor-ternarynet/meta.yaml

Links:

biotools: ternarynet

Gene-regulatory network (GRN) modeling seeks to infer dependencies between genes and thereby provide insight into the regulatory relationships that exist within a cell. This package provides a computational Bayesian approach to GRN estimation from perturbation experiments using a ternary network model, in which gene expression is discretized into one of 3 states: up, unchanged, or down). The ternarynet package includes a parallel implementation of the replica exchange Monte Carlo algorithm for fitting network models, using MPI.

package bioconductor-ternarynet

(downloads) docker_bioconductor-ternarynet

versions:
1.50.0-0,  1.46.0-0,  1.44.0-0,  1.42.0-1,  1.42.0-0,  1.38.0-2,  1.38.0-1,  1.38.0-0,  1.36.0-0, 

1.50.0-0,  1.46.0-0,  1.44.0-0,  1.42.0-1,  1.42.0-0,  1.38.0-2,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-1,  1.34.0-0,  1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-0,  1.20.0-0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc:

>=13

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx:

>=13

depends r-base:

>=4.4,<4.5.0a0

depends r-igraph:

requirements:

additional platforms:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-ternarynet

and update with::

   mamba update bioconductor-ternarynet

To create a new environment, run:

mamba create --name myenvname bioconductor-ternarynet

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-ternarynet/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda 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-ternarynet/README.html)