recipe r-cimpl

An analysis package for multi sample insertional mutagenesis data (including viral- and transposon-based systems) using Gaussian kernel convolution to identify common insertion sites.

Homepage:

https://www.nki.nl/research/research-groups/lodewyk-wessels/our-resources

Documentation:

https://github.com/NKI-CCB/cimpl/blob/v1.1/README.md

Developer docs:

https://github.com/NKI-CCB/cimpl

License:

GPL3 / GPL-3.0-or-later

Recipe:

/r-cimpl/meta.yaml

package r-cimpl

versions:

1.1-8,  1.1-7,  1.1-6,  1.1-5,  1.1-4,  1.1-3,  1.1-2,  1.1-0

depends bioconductor-biomart:

depends bioconductor-biostrings:

depends r-base:

>=4.4,<4.5.0a0

depends r-kernsmooth:

depends r-mass:

depends r-xtable:

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 r-cimpl

and update with::

   mamba update r-cimpl

To create a new environment, run:

mamba create --name myenvname r-cimpl

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/r-cimpl:<tag>

(see `r-cimpl/tags`_ for valid values for ``<tag>``)

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