recipe riboseed

riboSeed: assemble across rDNA regions

Homepage:

https://github.com/nickp60/riboSeed

License:

MIT / MIT License

Recipe:

/riboseed/meta.yaml

Genome assembly polisher to bridge rDNA gaps

package riboseed

versions:

0.4.90-0,  0.4.89-0,  0.4.88-0,  0.4.87-0,  0.4.86-0,  0.4.73-1,  0.4.73-0,  0.4.71-0,  0.4.70-2, 

0.4.90-0,  0.4.89-0,  0.4.88-0,  0.4.87-0,  0.4.86-0,  0.4.73-1,  0.4.73-0,  0.4.71-0,  0.4.70-2,  0.4.68-2,  0.4.67-2,  0.4.65-1,  0.4.47-1,  0.4.47-0,  0.4.16-0

depends barrnap:

depends bcbiogff:

depends bcftools:

depends biopython:

depends blast:

depends bwa:

depends coverage:

depends jenkspy:

depends mafft:

depends matplotlib:

depends networkx:

depends numpy:

depends pandas:

depends prank:

depends pyaml:

depends pysam:

depends python:

3.5.*

depends quast:

>=4.6.3

depends samtools:

depends skesa:

depends spades:

3.9.1

requirements:

additional platforms:

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 riboseed

and update with::

   mamba update riboseed

To create a new environment, run:

mamba create --name myenvname riboseed

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/riboseed:<tag>

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

Download stats

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/riboseed/README.html)