recipe gifrop

Identify, classify, and cluster genomic islands from roary pangenomes

Homepage:

https://github.com/jtrachsel/gifrop

License:

GPL2

Recipe:

/gifrop/meta.yaml

package gifrop

versions:

0.0.9-0,  0.0.6-1,  0.0.6-0,  0.0.5-0,  0.0.4-0,  0.0.1-0

depends abricate:

>=1.0.0

depends bioconductor-biostrings:

depends bioconductor-bsgenome:

depends parallel:

depends prokka:

>=1.14.6

depends r-base:

>=3.6

depends r-digest:

depends r-dplyr:

>=1.0.0

depends r-ggplot2:

depends r-igraph:

depends r-paralleldist:

depends r-purrr:

depends r-readr:

depends r-tibble:

depends r-tidyr:

depends roary:

>=3.13.0

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 gifrop

and update with::

   mamba update gifrop

To create a new environment, run:

mamba create --name myenvname gifrop

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/gifrop:<tag>

(see `gifrop/tags`_ for valid values for ``<tag>``)

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