recipe seq-seq-pan

seq-seq-pan

Homepage:

https://gitlab.com/chrjan/seq-seq-pan

License:

FreeBSD

Recipe:

/seq-seq-pan/meta.yaml

seq-seq-pan is a workflow for the SEQuential alignment of SEQuences to build a PAN-genome data structure and a whole-genome-alignment.

package seq-seq-pan

(downloads) docker_seq-seq-pan

versions:
1.1.0-1,  1.1.0-0,  1.0.1-4,  1.0.1-3,  1.0.1-1,  1.0.1-0,  1.0.0-4,  1.0.0-3,  1.0.0-1, 

1.1.0-1,  1.1.0-0,  1.0.1-4,  1.0.1-3,  1.0.1-1,  1.0.1-0,  1.0.0-4,  1.0.0-3,  1.0.0-1,  1.0.0-0

depends biopython:

1.69

depends blat:

35

depends libgenome:

1.3.1 hc9558a2_2

depends mauvealigner:

1.2.0

depends openjdk:

depends python:

>=3

depends snakemake:

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 seq-seq-pan

and update with::

   mamba update seq-seq-pan

To create a new environment, run:

mamba create --name myenvname seq-seq-pan

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/seq-seq-pan:<tag>

(see `seq-seq-pan/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/seq-seq-pan/README.html)