recipe bioconductor-simbindprofiles

Similar Binding Profiles

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-simbindprofiles/meta.yaml

Links:

biotools: simbindprofiles, doi: 10.1038/nmeth.3252

SimBindProfiles identifies common and unique binding regions in genome tiling array data. This package does not rely on peak calling, but directly compares binding profiles processed on the same array platform. It implements a simple threshold approach, thus allowing retrieval of commonly and differentially bound regions between datasets as well as events of compensation and increased binding.

package bioconductor-simbindprofiles

(downloads) docker_bioconductor-simbindprofiles

versions:
1.40.0-0,  1.38.0-0,  1.36.0-0,  1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0, 

1.40.0-0,  1.38.0-0,  1.36.0-0,  1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.20.0-1,  1.20.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends bioconductor-ringo:

>=1.66.0,<1.67.0

depends r-base:

>=4.3,<4.4.0a0

depends r-mclust:

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-simbindprofiles

and update with::

   mamba update bioconductor-simbindprofiles

To create a new environment, run:

mamba create --name myenvname bioconductor-simbindprofiles

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-simbindprofiles:<tag>

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

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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-simbindprofiles/README.html)