recipe mgca

Microbial genome component and annotation pipeline

Homepage:

https://github.com/liaochenlanruo/mgca/blob/master/README.md

Documentation:

https://liaochenlanruo.fun/mgca/

Developer docs:

https://github.com/liaochenlanruo/mgca/tree/master

License:

GPL / GPLv3

Recipe:

/mgca/meta.yaml

Links:

biotools: mgca

Microbial genome component and annotation pipeline.

package mgca

versions:

0.0.0-0

depends bakta:

1.4.0.*

depends eggnog-mapper:

2.1.7.*

depends emboss:

depends islandpath:

1.0.6.*

depends lastz:

1.04.15.*

depends mummer4:

4.0.0rc1.*

depends opfi:

0.1.2.*

depends perl:

>=5.32.1,<6.0a0 *_perl5

depends perl-bioperl:

depends phispy:

4.2.21.*

depends r-ggplot2:

depends repeatmasker:

4.1.2.p1.*

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 mgca

and update with::

   mamba update mgca

To create a new environment, run:

mamba create --name myenvname mgca

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/mgca:<tag>

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

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