recipe bioconductor-gdrcore

Processing functions and interface to process and analyze drug dose-response data

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-gdrcore/meta.yaml

This package contains core functions to process and analyze drug response data. The package provides tools for normalizing, averaging, and calculation of gDR metrics data. All core functions are wrapped into the pipeline function allowing analyzing the data in a straightforward way.

package bioconductor-gdrcore

versions:

1.0.0-0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0

depends bioconductor-biocparallel:

>=1.36.0,<1.37.0a0

depends bioconductor-bumpymatrix:

>=1.10.0,<1.11.0

depends bioconductor-bumpymatrix:

>=1.10.0,<1.11.0a0

depends bioconductor-gdrutils:

>=1.0.0,<1.1.0

depends bioconductor-gdrutils:

>=1.0.0,<1.1.0a0

depends bioconductor-multiassayexperiment:

>=1.28.0,<1.29.0

depends bioconductor-multiassayexperiment:

>=1.28.0,<1.29.0a0

depends bioconductor-s4vectors:

>=0.40.0,<0.41.0

depends bioconductor-s4vectors:

>=0.40.2,<0.41.0a0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0

depends bioconductor-summarizedexperiment:

>=1.32.0,<1.33.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends r-base:

>=4.3,<4.4.0a0

depends r-checkmate:

depends r-data.table:

depends r-futile.logger:

depends r-purrr:

depends r-stringr:

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-gdrcore

and update with::

   mamba update bioconductor-gdrcore

To create a new environment, run:

mamba create --name myenvname bioconductor-gdrcore

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-gdrcore:<tag>

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

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Link to this page

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