recipe prokka

Rapid annotation of prokaryotic genomes

Homepage:

https://github.com/tseemann/prokka

License:

GPL / GPL-3.0-only

Recipe:

/prokka/meta.yaml

Links:

biotools: prokka, doi: 10.1093/bioinformatics/btu153, usegalaxy-eu: prokka

package prokka

(downloads) docker_prokka

versions:
1.14.6-5,  1.14.6-4,  1.14.6-3,  1.14.6-2,  1.14.6-1,  1.14.6-0,  1.14.5-1,  1.14.5-0,  1.14.0-1, 

1.14.6-5,  1.14.6-4,  1.14.6-3,  1.14.6-2,  1.14.6-1,  1.14.6-0,  1.14.5-1,  1.14.5-0,  1.14.0-1,  1.14.0-0,  1.13.7-0,  1.13.4-0,  1.13.3-0,  1.13-4,  1.13-3,  1.13-2,  1.13-1,  1.13-0,  1.12-4,  1.12-3,  1.12-2,  1.12-1,  1.12-0,  1.11-0

depends aragorn:

>=1.2

depends barrnap:

>=0.7

depends blast:

>=2.7.1

depends hmmer:

>=3.1b2

depends infernal:

>=1.1.2

depends minced:

>=0.3

depends parallel:

>=20180522

depends perl:

>=5.32.1,<6.0a0 *_perl5

depends perl-bioperl:

>=1.7.2

depends perl-xml-simple:

depends prodigal:

>=2.6

depends tbl2asn-forever:

>=25.7

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 prokka

and update with::

   mamba update prokka

To create a new environment, run:

mamba create --name myenvname prokka

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/prokka:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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