recipe abacas

ABACAS is intended to rapidly contiguate (align, order, orientate), visualize and design primers to close gaps on shotgun assembled contigs based on a reference sequence.




GPL / GPL-2.0-or-later



package abacas

(downloads) docker_abacas



depends mummer:

depends perl:

>=5.32.1,<6.0a0 *_perl5



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 abacas

and update with::

   mamba update abacas

To create a new environment, run:

mamba create --name myenvname abacas

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<tag>

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

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