recipe bioconductor-acme

Algorithms for Calculating Microarray Enrichment (ACME)

Homepage:

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

License:

GPL-3-only

Recipe:

/bioconductor-acme/meta.yaml

Links:

biotools: acme

ACME (Algorithms for Calculating Microarray Enrichment) is a set of tools for analysing tiling array ChIP/chip, DNAse hypersensitivity, or other experiments that result in regions of the genome showing "enrichment". It does not rely on a specific array technology (although the array should be a "tiling" array), is very general (can be applied in experiments resulting in regions of enrichment), and is very insensitive to array noise or normalization methods. It is also very fast and can be applied on whole-genome tiling array experiments quite easily with enough memory.

package bioconductor-acme

versions:

2.58.0-1,  2.58.0-0,  2.56.0-0,  2.54.0-1,  2.54.0-0,  2.50.0-2,  2.50.0-1,  2.50.0-0,  2.48.0-0, 

2.58.0-1,  2.58.0-0,  2.56.0-0,  2.54.0-1,  2.54.0-0,  2.50.0-2,  2.50.0-1,  2.50.0-0,  2.48.0-0,  2.46.0-1,  2.46.0-0,  2.44.0-0,  2.42.0-0,  2.40.0-1,  2.38.0-0,  2.36.0-0,  2.34.0-0,  2.32.0-0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-biobase:

>=2.62.0,<2.63.0a0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends bioconductor-biocgenerics:

>=0.48.1,<0.49.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

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-acme

and update with::

   mamba update bioconductor-acme

To create a new environment, run:

mamba create --name myenvname bioconductor-acme

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-acme:<tag>

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

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