recipe ntjoin

Genome assembly scaffolder using minimizer graphs

Homepage:

http://www.bcgsc.ca/platform/bioinfo/software/ntjoin

License:

GPL-3.0

Recipe:

/ntjoin/meta.yaml

package ntjoin

versions:

1.1.4-0,  1.1.3-0,  1.1.2-0,  1.1.1-2,  1.1.1-1,  1.1.1-0,  1.1.0-0,  1.0.8-1,  1.0.8-0, 

1.1.4-0,  1.1.3-0,  1.1.2-0,  1.1.1-2,  1.1.1-1,  1.1.1-0,  1.1.0-0,  1.0.8-1,  1.0.8-0,  1.0.7-0,  1.0.6-1,  1.0.6-0,  1.0.5-1,  1.0.5-0,  1.0.3-0,  1.0.2-0,  1.0.1-0

depends bedtools:

>=2.21.0

depends btllib:

depends make:

depends pybedtools:

depends pymannkendall:

depends pysam:

>=0.16.0

depends python:

depends python-igraph:

depends samtools:

>=1.10

depends zlib:

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 ntjoin

and update with::

   mamba update ntjoin

To create a new environment, run:

mamba create --name myenvname ntjoin

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/ntjoin:<tag>

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

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