recipe canu

Canu is a fork of the Celera Assembler designed for high-noise single-molecule sequencing.

Homepage:

http://canu.readthedocs.org/

Developer docs:

https://github.com/marbl/canu

License:

GPL / GPLv2 and others

Recipe:

/canu/meta.yaml

Links:

usegalaxy-eu: canu

package canu

(downloads) docker_canu

versions:
2.2-0,  2.1.1-2,  2.1.1-1,  2.1.1-0,  2.0-0,  1.9-1,  1.9-0,  1.8-2,  1.8-1, 

2.2-0,  2.1.1-2,  2.1.1-1,  2.1.1-0,  2.0-0,  1.9-1,  1.9-0,  1.8-2,  1.8-1,  1.8-0,  1.7.1-0,  1.7-0,  1.6-1,  1.5-1,  1.5-0,  1.4-2,  1.4-1,  1.4-0,  1.3-0,  1.1-0

depends gnuplot:

>=5.2

depends libgcc-ng:

>=9.4.0

depends libstdcxx-ng:

>=9.4.0

depends minimap2:

depends openjdk:

>=8

depends perl:

depends perl-filesys-df:

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 canu

and update with::

   mamba update canu

To create a new environment, run:

mamba create --name myenvname canu

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/canu:<tag>

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

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Link to this page

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