recipe bioconductor-semdist

Information Accretion-based Function Predictor Evaluation

Homepage:

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

License:

GPL (>= 2)

Recipe:

/bioconductor-semdist/meta.yaml

Links:

biotools: semdist, doi: 10.1038/nmeth.3252

This package implements methods to calculate information accretion for a given version of the gene ontology and uses this data to calculate remaining uncertainty, misinformation, and semantic similarity for given sets of predicted annotations and true annotations from a protein function predictor.

package bioconductor-semdist

(downloads) docker_bioconductor-semdist

versions:
1.36.0-0,  1.34.0-0,  1.32.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-1,  1.24.0-0,  1.22.0-0,  1.20.0-0, 

1.36.0-0,  1.34.0-0,  1.32.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-1,  1.24.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-0

depends bioconductor-annotate:

>=1.80.0,<1.81.0

depends bioconductor-annotationdbi:

>=1.64.0,<1.65.0

depends bioconductor-go.db:

>=3.18.0,<3.19.0

depends r-base:

>=4.3,<4.4.0a0

requirements:

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-semdist

and update with::

   mamba update bioconductor-semdist

To create a new environment, run:

mamba create --name myenvname bioconductor-semdist

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-semdist:<tag>

(see `bioconductor-semdist/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-semdist/README.html)