recipe saspector

A tool for analysis of missing regions in (bacterial) draft genomes.

Homepage:

https://github.com/alejocrojo09/SASpector

License:

MIT

Recipe:

/saspector/meta.yaml

package saspector

versions:

0.0.5-0,  0.0.3-0,  0.0.1-0

depends biopython:

depends blast:

depends matplotlib-base:

depends numpy:

depends pandas:

depends progressbar:

depends progressivemauve:

depends prokka:

depends python:

>3

depends quast:

depends samtools:

depends seaborn:

depends sourmash:

depends trf:

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 saspector

and update with::

   mamba update saspector

To create a new environment, run:

mamba create --name myenvname saspector

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/saspector:<tag>

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

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Link to this page

Render an 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/saspector/README.html)