recipe vulcan

vulcan, map long reads and prosper🖖, a long read mapping pipeline that melds minimap2 and NGMLR

Homepage:

https://gitlab.com/treangenlab/vulcan

License:

MIT

Recipe:

/vulcan/meta.yaml

package vulcan

(downloads) docker_vulcan

versions:

1.0.3-01.0.2-11.0.2-01.0.1-0

depends bamtools:

depends minimap2:

depends ngmlr:

depends numpy:

depends pysam:

depends python:

>=3.5

depends samtools:

1.9

depends tqdm:

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 vulcan

and update with::

   mamba update vulcan

To create a new environment, run:

mamba create --name myenvname vulcan

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/vulcan:<tag>

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

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